Diff of the two buildlogs: -- --- b1/build.log 2025-02-24 06:21:10.943558688 +0000 +++ b2/build.log 2025-02-24 07:09:47.803716390 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Sun Mar 29 00:36:18 -12 2026 -I: pbuilder-time-stamp: 1774787778 +I: Current time: Mon Feb 24 20:21:15 +14 2025 +I: pbuilder-time-stamp: 1740378075 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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/500906/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/3639457/tmp/hooks/D01_modify_environment starting +debug: Running on ionos11-amd64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Feb 24 06:21 /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/3639457/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/3639457/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='amd64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' - DISTRIBUTION='trixie' - 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=20 ' + DIRSTACK=() + DISTRIBUTION=trixie + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='f030b8bad3f441d19922ddb6d46875f1' - 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='500906' - PS1='# ' - PS2='> ' + INVOCATION_ID=e0a40bea296342089d860ecba96488e5 + 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=3639457 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.5oRxwu7A/pbuilderrc_A6pR --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.5oRxwu7A/b1 --logfile b1/build.log genomicsdb_1.5.4-5.dsc' - SUDO_GID='110' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://213.165.73.152:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.5oRxwu7A/pbuilderrc_uWo8 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.5oRxwu7A/b2 --logfile b2/build.log genomicsdb_1.5.4-5.dsc' + SUDO_GID=111 + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://46.16.76.132:3128 I: uname -a - Linux ionos5-amd64 6.12.9+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.9-1~bpo12+1 (2025-01-19) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/500906/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/3639457/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -697,7 +729,7 @@ Get: 502 http://deb.debian.org/debian trixie/main amd64 rapidjson-dev all 1.1.0+dfsg2-7.3 [98.0 kB] Get: 503 http://deb.debian.org/debian trixie/main amd64 testng all 6.9.12-4 [795 kB] Get: 504 http://deb.debian.org/debian trixie/main amd64 uuid-dev amd64 2.40.4-4 [47.7 kB] -Fetched 399 MB in 13s (31.3 MB/s) +Fetched 399 MB in 22s (18.4 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 ... 19802 files and directories currently installed.) @@ -2332,8 +2364,8 @@ Setting up tzdata (2025a-2) ... Current default time zone: 'Etc/UTC' -Local time is now: Sun Mar 29 12:38:15 UTC 2026. -Universal Time is now: Sun Mar 29 12:38:15 UTC 2026. +Local time is now: Mon Feb 24 06:30:14 UTC 2025. +Universal Time is now: Mon Feb 24 06:30:14 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:amd64 (1.17.0-2+b1) ... @@ -2971,7 +3003,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/genomicsdb-1.5.4/ && 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_1.5.4-5_source.changes +I: user script /srv/workspace/pbuilder/3639457/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for trixie +I: user script /srv/workspace/pbuilder/3639457/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/genomicsdb-1.5.4/ && 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_1.5.4-5_source.changes dpkg-buildpackage: info: source package genomicsdb dpkg-buildpackage: info: source version 1.5.4-5 dpkg-buildpackage: info: source distribution unstable @@ -2997,7 +3033,7 @@ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4' dh_autoreconf_clean -O--buildsystem=cmake jh_clean -O--buildsystem=cmake -Duplicate specification "u=s" for option "u" +Duplicate specification "unlink|u" for option "u" dh_clean -O--buildsystem=cmake debian/rules binary dh binary --buildsystem=cmake --with javahelper @@ -3098,8 +3134,8 @@ command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. --- Configuring done (3.3s) --- Generating done (0.4s) +-- Configuring done (32.4s) +-- Generating done (4.7s) CMake Warning: Manually-specified variables were not used by the project: @@ -3162,8 +3198,8 @@ command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. --- Configuring done (0.7s) --- Generating done (0.4s) +-- Configuring done (7.0s) +-- Generating done (9.5s) -- Build files have been written to: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu # Configuring the Java part using Maven. # First we put the arch triplet in d/maven.properties for the tests. @@ -3175,11 +3211,11 @@ mh_patchpoms -plibgenomicsdb-java --debian-build --keep-pom-version --maven-repo=/build/reproducible-path/genomicsdb-1.5.4/debian/maven-repo make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4' 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-1.5.4' dh_auto_build - cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j20 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.4 -B/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu//CMakeFiles/progress.marks @@ -3187,125 +3223,73 @@ make[3]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/depend 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/build +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-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 0%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o +[ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/knetfile.c +[ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build +make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 0%] Built target protobuf_ep -[ 1%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o -[ 1%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -[ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o -[ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -[ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o -[ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -[ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -[ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o -[ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o -[ 3%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o -[ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -[ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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/bcf_sr_sort.c.o -MF CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o.d -o CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/bcf_sr_sort.c -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/array/array.cc -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time 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Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/faidx.c -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 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/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/codec_blosc.cc -[ 9%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/knetfile.c -[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o -[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc 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-DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/codec/codec_zstd.cc -[ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o -[ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/codec/codec_rle.cc -[ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec 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/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle/bitshuffle_core.c -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle/iochain.c -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/hts.c -[ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/expressions/expression.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions 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CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/fragment/book_keeping.cc -[ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/hts_os.c -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/md5.c -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/c_api/tiledb.cc -[ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/fragment/fragment.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/fragment/read_state.cc -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/multipart.c -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/probaln.c -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time 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&& /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/array/array.cc +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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/bcf_sr_sort.c.o -MF CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o.d -o CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/bcf_sr_sort.c +[ 2%] 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/resources /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu 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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/array/array_read_state.cc +[ 3%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o +[ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/bgzf.c +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/array/array_schema.cc +[ 3%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o +[ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o +[ 3%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/header.c make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/array/array_sorted_read_state.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 13%] Generating source/header files from .proto files -[ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o +[ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o +[ 4%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/array/array_sorted_write_state.cc +[ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/errmod.c +[ 5%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o +[ 6%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/faidx.c +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 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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-1.5.4/genomicsdb-tiledb/core/src/c_api/tiledb_utils.cc +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/hfile.c +[ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/hfile_libcurl.c +[ 6%] Generating source/header files from .proto files +[ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/hfile_net.c cd /build/reproducible-path/genomicsdb-1.5.4/src/resources && /usr/bin/protoc --cpp_out=/build/reproducible-path/genomicsdb-1.5.4/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 -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/fragment/write_state.cc -[ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/metadata/metadata.cc -[ 14%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 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-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-1.5.4/genomicsdb-htslib/synced_bcf_reader.c +[ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/hts.c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/hfile_libcurl.c: In function 'libcurl_open': /build/reproducible-path/genomicsdb-1.5.4/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, @@ -3314,113 +3298,58 @@ /usr/include/x86_64-linux-gnu/curl/curl.h:2897:3: note: declared here 2897 | CURLINFO_CONTENT_LENGTH_DOWNLOAD | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -[ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec 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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-1.5.4/genomicsdb-tiledb/core/src/metadata/metadata_iterator.cc -[ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/misc/error.cc -[ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/misc/hilbert_curve.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -[ 15%] Built target PROTOBUF_GENERATED_CXX_TARGET -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/misc/mem_utils.cc -[ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/vcf_sweep.c -[ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/tbx.c -[ 17%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/misc/progress_bar.cc -[ 17%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/misc/uri.cc -[ 17%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/misc/utils.cc -[ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/storage/storage_buffer.cc -[ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/storage/storage_fs.cc -[ 18%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o -cd 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-ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/codec/codec.cc +[ 7%] 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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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-I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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 CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o -c 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-I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/variant_cell.cc -[ 20%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/variant_storage_manager.cc -[ 20%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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 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-I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/variant_array_schema.cc -[ 20%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api 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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-1.5.4/genomicsdb-tiledb/core/src/storage/storage_manager_config.cc -[ 21%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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 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-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-1.5.4/src/main/cpp/src/genomicsdb/query_variants.cc -[ 22%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o +[ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/hts_os.c +[ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong 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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-1.5.4/genomicsdb-htslib/multipart.c +[ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/probaln.c +[ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/regidx.c +[ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/realn.c +[ 9%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g 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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-1.5.4/genomicsdb-htslib/synced_bcf_reader.c +[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/vcf_sweep.c +[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/tbx.c +[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o +cd 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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-1.5.4/genomicsdb-tiledb/core/src/storage/storage_posixfs.cc -[ 24%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o +[ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4/lz4.c -[ 24%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o +[ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/cram_decode.c -[ 24%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o +[ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/cram_encode.c -[ 24%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o +[ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/cram_external.c -[ 25%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o +[ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/cram_index.c -[ 25%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -[ 25%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/cram_io.c -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/cram_samtools.c -In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:25: -/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3443,50 +3372,18 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 26%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o +[ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/cram_io.c +[ 13%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/codec/codec_blosc.cc +[ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/cram_samtools.c +[ 14%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/cram_stats.c -In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_cell.cc:23: -/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:26: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -[ 26%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o +[ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/codec/codec_filter.cc +[ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/mFILE.c -In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/variant_operations_columnar.cc:23: -/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/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 - | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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)); @@ -3530,14 +3427,73 @@ /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__ | ^~~~~~ -[ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc +[ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/open_trace_file.c +[ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/pooled_alloc.c +[ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o +[ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/rANS_static.c +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/codec/codec_filter_bit_shuffle.cc +[ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/codec/codec_filter_delta_encode.cc +[ 17%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/codec/codec_gzip.cc +[ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/string_alloc.c +/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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)); + | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/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__ + | ^~~~~~ +[ 17%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc +[ 17%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/codec/codec_lz4.cc +[ 17%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/codec/codec_rle.cc +[ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/codec/codec_zstd.cc +[ 18%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle/bitshuffle_core.c +[ 18%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle/iochain.c +[ 18%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o +[ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/query_operations/variant_operations_columnar.cc +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/expressions/expression.cc +[ 19%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/fragment/book_keeping.cc +/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/src/main/cpp/src/query_operations/variant_operations.cc:984:36: note: remove 'std::move' call +[ 19%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/fragment/fragment.cc +[ 20%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc +[ 20%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/fragment/read_state.cc +[ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/metadata/metadata.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc:23: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:25: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3554,12 +3510,26 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc +[ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/misc/hilbert_curve.cc +[ 22%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/misc/mem_utils.cc +[ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/misc/progress_bar.cc +[ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/misc/uri.cc +[ 23%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_storage_manager.cc:25: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc:23: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3571,16 +3541,19 @@ from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:28: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/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 | ^~~~~~~~ -[ 27%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc +[ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/misc/utils.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_array_schema.cc:25: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/variant_operations_columnar.cc:23: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3592,18 +3565,84 @@ from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_array_schema.h:27, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_array_schema.cc:24: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/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 | ^~~~~~~~ -[ 27%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/open_trace_file.c +[ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/storage/storage_buffer.cc +[ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/storage/storage_fs.cc +[ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/storage/storage_manager.cc +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_INFO_fields(const Variant&)': +/build/reproducible-path/genomicsdb-1.5.4/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)))); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:622:37: note: remove 'std::move' call +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:643:34: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] + 643 | auto result_str = std::move( + | ~~~~~~~~~^ + 644 | GET_HISTOGRAM_FIELD_HANDLER_PTR_FROM_TUPLE(curr_INFO_histogram_tuple)->stringify_histogram( + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 645 | length_descriptor.get_vcf_delimiter(0u), + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 646 | length_descriptor.get_vcf_delimiter(1u) + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 647 | )); + | ~~ +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:643:34: note: remove 'std::move' call +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_deletions(Variant&)': +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:1106:37: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] + 1106 | auto null_PL_ptr = std::move(std::unique_ptr(nullptr)); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:1106:37: note: remove 'std::move' call +[ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/storage/storage_manager_config.cc +[ 25%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/core/src/storage/storage_posixfs.cc +[ 25%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4/lz4.c +[ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/variant_cell.cc +In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:25: +/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/gt_remapper.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/gt_remapper_template_definition.h:25, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:23: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +[ 26%] Linking C shared library libgenomicsdb-hts.so +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdb-hts.dir/link.txt --verbose=1 +[ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/variant_storage_manager.cc +/usr/bin/cc -fPIC -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu' +[ 27%] Built target genomicsdb-hts +[ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/variant_field_data.cc +[ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/variant_array_schema.cc +[ 28%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc +[ 28%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/variant.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant.cc:23: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_cell.cc:23: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3615,17 +3654,14 @@ from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:27: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.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-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc:24: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_storage_manager.cc:25: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3637,8 +3673,7 @@ from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:27: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:28: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ @@ -3656,32 +3691,10 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 28%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/pooled_alloc.c -[ 28%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/string_alloc.c -[ 28%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/genomicsdb-htslib/cram/rANS_static.c -/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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)); - | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/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__ - | ^~~~~~ -[ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/loader/load_operators.cc -[ 29%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/loader/tiledb_loader_text_file.cc -[ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/loader/genomicsdb_importer.cc -[ 29%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/loader/tiledb_loader_file_base.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/query_variants.cc:24: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_array_schema.cc:25: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3693,13 +3706,17 @@ from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/query_variants.cc:23: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_array_schema.h:27, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_array_schema.cc:24: /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-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:25: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3711,17 +3728,18 @@ from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/gt_remapper.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/gt_remapper_template_definition.h:25, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:23: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/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 | ^~~~~~~~ -[ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/loader/tiledb_loader.cc -[ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/memory_measure.cc -In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc:23: +[ 28%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/query_variants.cc +In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant.cc:23: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3733,14 +3751,22 @@ from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:26: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/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 | ^~~~~~~~ -[ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/histogram.cc +[ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc +[ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc +[ 29%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc:24: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/query_variants.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3752,54 +3778,35 @@ from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:26: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/query_variants.cc:23: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +[ 29%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/loader/tiledb_loader_text_file.cc +[ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/loader/load_operators.cc +[ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/loader/genomicsdb_importer.cc +In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc:23: +/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/vid_mapper_pb.cc -/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/src/main/cpp/src/query_operations/variant_operations.cc:984:36: note: remove 'std::move' call -[ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/lut.cc -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_INFO_fields(const Variant&)': -/build/reproducible-path/genomicsdb-1.5.4/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)))); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:622:37: note: remove 'std::move' call -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:643:34: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] - 643 | auto result_str = std::move( - | ~~~~~~~~~^ - 644 | GET_HISTOGRAM_FIELD_HANDLER_PTR_FROM_TUPLE(curr_INFO_histogram_tuple)->stringify_histogram( - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 645 | length_descriptor.get_vcf_delimiter(0u), - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 646 | length_descriptor.get_vcf_delimiter(1u) - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 647 | )); - | ~~ -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:643:34: note: remove 'std::move' call -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_deletions(Variant&)': -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:1106:37: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] - 1106 | auto null_PL_ptr = std::move(std::unique_ptr(nullptr)); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:1106:37: note: remove 'std::move' call -[ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/known_field_info.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:24: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3811,17 +3818,17 @@ from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/vid_mapper.h:27, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:23: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +[ 30%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/loader/tiledb_loader_file_base.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/load_operators.cc:24: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3834,26 +3841,18 @@ from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/vid_mapper.h:27, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:26: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:23: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/vid_mapper.cc -[ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/vid_mapper_sql.cc -[ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/timer.cc -[ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/genomicsdb_logger.cc +[ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/loader/tiledb_loader.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/genomicsdb_importer.h:25, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/genomicsdb_importer.cc:23: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/load_operators.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3866,10 +3865,14 @@ from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/vid_mapper.h:27, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:27: + from /build/reproducible-path/genomicsdb-1.5.4/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 | ^~~~~~~~ +[ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/memory_measure.cc +[ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/histogram.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3892,8 +3895,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 33%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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( @@ -3903,10 +3904,34 @@ 438 | str, str_length)); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: note: remove 'std::move' call -[ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/vcf/vcf_adapter.cc -[ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/vcf/genomicsdb_bcf_generator.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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/vid_mapper_pb.cc +In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/genomicsdb_importer.h:25, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/genomicsdb_importer.cc:23: +/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/vid_mapper.h:27, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:27: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +[ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/lut.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -3925,20 +3950,21 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/vcf/vcf2binary.cc -[ 34%] Building C object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -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-1.5.4/src/main/cpp/src/vcf/hfile_genomicsdb.c -[ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/vcf/htslib_fs_adapter.cc -[ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/config/variant_query_config.cc -[ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -cd 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-I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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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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-1.5.4/src/main/cpp/src/utils/vid_mapper.cc +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 33%] 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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 33%] Linking CXX static library libgenomicsdb-tiledb.a +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_static.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3962,31 +3988,18 @@ /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-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc:23: -/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: -/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/api/annotation_service.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb 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+make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 33%] Built target tiledb_static +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 34%] Linking CXX shared library libgenomicsdb-tiledb.so +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_shared.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -4007,8 +4020,37 @@ /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/api/genomicsdb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/api/genomicsdb.cc +[ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/vid_mapper_sql.cc +[ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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 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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 CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o 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-1.5.4/obj-x86_64-linux-gnu' +[ 34%] Built target tiledb_shared +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 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-DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/array/test_array_schema.cc +[ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/genomicsdb_logger.cc +/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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)); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc:757:47: note: remove 'std::move' call +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void FileBasedVidMapper::common_constructor_initialization(const rapidjson::Value&)': +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc:1269:40: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] + 1269 | auto class_name = std::move(std::string(vcf_field_class_array[i].GetString())); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc:1269:40: note: remove 'std::move' call +[ 35%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc +[ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/vcf/vcf_adapter.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] @@ -4028,22 +4070,67 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +[ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc +[ 35%] Linking CXX executable test_array_schema +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema.dir/link.txt --verbose=1 +[ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/vcf/vcf2binary.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/variant_query_config.cc:26: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc:23: /build/reproducible-path/genomicsdb-1.5.4/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/algorithm:60, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/variant_query_config.cc:24: +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-1.5.4/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/api/genomicsdb_field.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 36%] Built target test_array_schema +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 36%] 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-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/benchmark/test_print_array_schema.cc +[ 36%] Building C object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -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-1.5.4/src/main/cpp/src/vcf/hfile_genomicsdb.c +[ 37%] Linking CXX executable test_print_array_schema +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/vcf/htslib_fs_adapter.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 37%] 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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 37%] 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-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/benchmark/test_print_book_keeping.cc +[ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/config/variant_query_config.cc +[ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/config/genomicsdb_config_base.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -4065,49 +4152,65 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/api/genomicsdb_plink.cc -/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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)); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc:757:47: note: remove 'std::move' call +[ 38%] Linking CXX executable test_print_book_keeping +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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 /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/json_config.cc +[ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/config/pb_config.cc +[ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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/annotation_service.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/annotation_service.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 39%] Built target test_print_book_keeping +make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/depend +In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/variant_query_config.cc:26: +/build/reproducible-path/genomicsdb-1.5.4/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/algorithm:60, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/variant_query_config.cc:24: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 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-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc +[ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/api/genomicsdb.cc /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/genomicsdb_config_base.cc: In member function 'const bool GenomicsDBConfigBase::has_array_name(int) const': /build/reproducible-path/genomicsdb-1.5.4/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)) { | ~~~~~~~~~~~~~~~~~~~~~^~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void FileBasedVidMapper::common_constructor_initialization(const rapidjson::Value&)': -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc:1269:40: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] - 1269 | auto class_name = std::move(std::string(vcf_field_class_array[i].GetString())); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc:1269:40: note: remove 'std::move' call -[ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/api/genomicsdb_utils.cc +[ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/api/genomicsdb_field.cc +[ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/api/genomicsdb_plink.cc /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/json_config.cc:193:43: note: remove 'std::move' call -[ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/api/genomicsdb_json_processor.cc /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/json_config.cc: In member function 'void GenomicsDBImportConfig::read_from_file(const std::string&, int)': /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/json_config.cc:704:43: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 704 | rapidjson::Document json_doc = std::move(GenomicsDBConfigBase::read_from_file(filename, rank)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/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/__/resources/genomicsdb_coordinates.pb.cc.o +[ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/api/genomicsdb_utils.cc +[ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/cpp/src/api/genomicsdb_json_processor.cc +[ 41%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/src/resources/genomicsdb_coordinates.pb.cc -[ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/src/resources/genomicsdb_callsets_mapping.pb.cc -[ 39%] Linking C shared library libgenomicsdb-hts.so -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdb-hts.dir/link.txt --verbose=1 -[ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/src/resources/genomicsdb_export_config.pb.cc -/usr/bin/cc -fPIC -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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" 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"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-1.5.4/obj-x86_64-linux-gnu' -[ 39%] Built target genomicsdb-hts -[ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/src/resources/genomicsdb_import_config.pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -4126,7 +4229,13 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o +[ 41%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/src/resources/genomicsdb_callsets_mapping.pb.cc +[ 41%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/src/resources/genomicsdb_export_config.pb.cc +[ 42%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/src/resources/genomicsdb_import_config.pb.cc +[ 42%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/src/resources/genomicsdb_vid_mapping.pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, @@ -4145,207 +4254,186 @@ /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_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 40%] 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 -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" +[ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc +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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 43%] 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-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc +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-1.5.4/obj-x86_64-linux-gnu' -[ 41%] Linking CXX static library libgenomicsdb-tiledb.a -[ 41%] Linking CXX shared library libgenomicsdb-tiledb.so -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_shared.dir/link.txt --verbose=1 -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake 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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-1.5.4/obj-x86_64-linux-gnu' -[ 41%] Built target tiledb_shared -/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 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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 CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o 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/bin/ranlib libgenomicsdb-tiledb.a +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 41%] Built target tiledb_static -make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make 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/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_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 +[ 43%] 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-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/c_api/test_dense_array_api.cc +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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/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_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend +[ 44%] 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-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/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 +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend +[ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" +[ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/codec/test_codec_filter.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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" 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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/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 -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/depend -make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/depend +[ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/expressions/test_expressions.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/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 -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake "--color=" -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build -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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/expressions/test_filter_api.cc +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 45%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/misc/test_mem_utils.cc +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*)', + inlined from 'constexpr std::basic_string_view<_CharT, _Traits> std::basic_string_view<_CharT, _Traits>::substr(size_type, size_type) const [with _CharT = char; _Traits = std::char_traits]' at /usr/include/c++/14/string_view:336:25, + inlined from 'std::string_view get_segment(std::string_view, int)' at /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb.cc:820:20: +/usr/include/c++/14/string_view:72:5: warning: 'pos' may be used uninitialized [-Wmaybe-uninitialized] + 72 | if (__pos > __size) + | ^~ +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb.cc: In function 'std::string_view get_segment(std::string_view, int)': +/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb.cc:807:26: note: 'pos' was declared here + 807 | std::string::size_type pos; + | ^~~ +[ 46%] Linking CXX executable test_codec +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec.dir/link.txt --verbose=1 +[ 46%] Linking CXX executable test_mem_utils +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mem_utils.dir/link.txt --verbose=1 +[ 46%] Linking CXX executable test_codec_filter +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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 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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/misc/test_uri.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 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/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 41%] 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-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/array/test_array_schema.cc -[ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc -make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.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 -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-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 47%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc +[ 47%] Built target test_codec +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-1.5.4/obj-x86_64-linux-gnu' -[ 41%] 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-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/benchmark/test_print_book_keeping.cc -[ 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-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/c_api/test_sparse_array_api.cc -make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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 -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build -make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build -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-1.5.4/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 -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-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 48%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/storage_manager/test_posixfs.cc +[ 48%] Linking CXX executable test_filter_api +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_filter_api.dir/link.txt --verbose=1 +[ 49%] Linking CXX executable test_sparse_array_benchmark +cd /build/reproducible-path/genomicsdb-1.5.4/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_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 49%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 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"--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -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_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build +[ 49%] Built target test_filter_api make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" +[ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_3d.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 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-DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/codec/test_codec.cc +[ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o cd 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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_aio_write_dense.cc -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 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/usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/misc/test_uri.cc -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP 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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/expressions/test_filter_api.cc -[ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/test/src/misc/test_mem_utils.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 50%] Built target test_sparse_array_benchmark +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 50%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_consolidate.cc 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-1.5.4/obj-x86_64-linux-gnu' @@ -4353,814 +4441,782 @@ make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 47%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o +[ 50%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 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'/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 48%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_create_sparse.cc -[ 48%] Linking CXX executable tiledb_array_aio_write_dense -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 49%] Linking CXX executable tiledb_array_consolidate -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 52%] Built target tiledb_array_3d 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 52%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_iterator_dense.cc +[ 52%] Built target tiledb_array_aio_read_dense 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake "--color=" -[ 50%] Linking CXX executable tiledb_array_aio_read_dense -[ 50%] Linking CXX executable tiledb_array_3d -cd /build/reproducible-path/genomicsdb-1.5.4/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 -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_3d.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 51%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -[ 51%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 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/usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 53%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +[ 53%] Built target tiledb_array_create_dense +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" -[ 51%] Linking CXX executable tiledb_array_create_dense -cd /build/reproducible-path/genomicsdb-1.5.4/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 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 51%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse_filter.cc -[ 51%] Built target test_print_array_schema +[ 53%] Built target tiledb_array_aio_write_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/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 51%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o +[ 53%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse_filter.cc +[ 53%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_dense.cc -[ 52%] Linking CXX executable tiledb_array_create_sparse +[ 54%] Linking CXX executable tiledb_array_create_sparse cd /build/reproducible-path/genomicsdb-1.5.4/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 -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*)', - inlined from 'constexpr std::basic_string_view<_CharT, _Traits> std::basic_string_view<_CharT, _Traits>::substr(size_type, size_type) const [with _CharT = char; _Traits = std::char_traits]' at /usr/include/c++/14/string_view:336:25, - inlined from 'std::string_view get_segment(std::string_view, int)' at /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb.cc:820:20: -/usr/include/c++/14/string_view:72:5: warning: 'pos' may be used uninitialized [-Wmaybe-uninitialized] - 72 | if (__pos > __size) - | ^~ -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb.cc: In function 'std::string_view get_segment(std::string_view, int)': -/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb.cc:807:26: note: 'pos' was declared here - 807 | std::string::size_type pos; - | ^~~ -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 52%] Linking CXX executable tiledb_array_iterator_dense -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 52%] Linking CXX executable tiledb_array_iterator_sparse -cd /build/reproducible-path/genomicsdb-1.5.4/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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 52%] Built target tiledb_array_consolidate -[ 52%] Built target tiledb_array_aio_write_dense -[ 52%] Built target tiledb_array_3d +[ 54%] Built target tiledb_array_consolidate 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 -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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" -[ 52%] Built target tiledb_array_aio_read_dense -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 55%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_sparse.cc +[ 55%] Linking CXX executable tiledb_array_iterator_dense +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 55%] Linking CXX executable tiledb_array_iterator_sparse +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 55%] Linking CXX executable tiledb_array_parallel_consolidate_dense +cd /build/reproducible-path/genomicsdb-1.5.4/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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 55%] Built target tiledb_array_create_sparse +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 +[ 56%] Linking CXX executable tiledb_array_iterator_sparse_filter +cd /build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 56%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_1.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 56%] Linking CXX executable tiledb_array_parallel_consolidate_sparse +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 56%] Built target tiledb_array_iterator_sparse +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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 57%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_2.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 57%] Built target tiledb_array_iterator_dense +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 +[ 58%] Linking CXX executable test_array_iterator +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_iterator.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 54%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -[ 54%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -[ 54%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_sparse.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_2.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_1.cc -[ 54%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_mpi_io_dense.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -[ 54%] Linking CXX executable tiledb_array_parallel_consolidate_dense +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 54%] Built target tiledb_array_create_dense +[ 58%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_mpi_io_dense.cc +[ 58%] Built target tiledb_array_iterator_sparse_filter 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_1.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/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/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" +[ 58%] Linking CXX executable tiledb_array_parallel_read_dense_1 +cd /build/reproducible-path/genomicsdb-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 54%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -[ 55%] Linking CXX executable tiledb_array_iterator_sparse_filter -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_1.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o +[ 58%] Linking CXX executable tiledb_array_parallel_read_dense_2 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 59%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_2.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +[ 59%] Linking CXX executable tiledb_array_parallel_read_sparse_1 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 60%] Linking CXX executable tiledb_array_parallel_read_mpi_io_dense +cd /build/reproducible-path/genomicsdb-1.5.4/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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 56%] Built target tiledb_array_create_sparse +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 60%] Built target tiledb_array_parallel_consolidate_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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" +[ 60%] Built target tiledb_array_parallel_read_mpi_io_dense +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 56%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_1.cc -[ 56%] Linking CXX executable test_print_book_keeping -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 57%] Linking CXX executable tiledb_array_parallel_read_mpi_io_dense -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -cd /build/reproducible-path/genomicsdb-1.5.4/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[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 57%] Built target tiledb_array_iterator_dense -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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -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_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build +[ 60%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_1.cc +[ 60%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_2.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 60%] Built target test_array_iterator +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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -[ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o +[ 60%] Linking CXX executable tiledb_array_parallel_read_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 60%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_1.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_2.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 57%] Linking CXX executable tiledb_array_parallel_consolidate_sparse -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 57%] Built target tiledb_array_parallel_read_mpi_io_dense -[ 57%] Built target tiledb_array_iterator_sparse +[ 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 -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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 57%] Linking CXX executable tiledb_array_parallel_read_sparse_1 -cd /build/reproducible-path/genomicsdb-1.5.4/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_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/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 +[ 60%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_2.cc +[ 60%] Built target tiledb_array_parallel_read_dense_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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 +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-1.5.4/obj-x86_64-linux-gnu' -[ 57%] Linking CXX executable tiledb_array_parallel_read_dense_1 -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && 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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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_primitive.cc -[ 58%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_2.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 58%] Built target tiledb_array_parallel_consolidate_dense +[ 61%] Built target tiledb_array_parallel_read_dense_2 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" -[ 58%] Built target tiledb_array_iterator_sparse_filter +[ 61%] Linking CXX executable tiledb_array_parallel_write_dense_2 +cd /build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -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 -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-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" -[ 58%] Linking CXX executable tiledb_array_parallel_read_sparse_2 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o +[ 61%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_1.cc -[ 58%] Linking CXX executable tiledb_array_parallel_read_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' 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 +[ 62%] Linking CXX executable tiledb_array_parallel_write_dense_1 +cd /build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o +[ 62%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_2.cc -[ 59%] Linking CXX executable tiledb_array_parallel_write_dense_1 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 60%] Linking CXX executable tiledb_array_parallel_write_sparse_1 +[ 63%] Linking CXX executable tiledb_array_parallel_write_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.4/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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/depend +[ 63%] Linking CXX executable tiledb_array_parallel_write_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 63%] Linking CXX executable tiledb_array_read_dense_2 +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 63%] Built target tiledb_array_parallel_read_sparse_2 +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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" -[ 60%] Linking CXX executable tiledb_array_parallel_write_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 60%] Built target test_print_book_keeping +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 64%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_3.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 64%] Built target tiledb_array_parallel_write_dense_1 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 61%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_3.cc -[ 61%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 64%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_sorted.cc -[ 61%] Linking CXX executable tiledb_array_parallel_write_sparse_2 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 61%] Linking CXX executable tiledb_array_primitive +[ 64%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_1.cc +[ 64%] Linking CXX executable tiledb_array_primitive cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_primitive.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 61%] Built target tiledb_array_parallel_consolidate_sparse -[ 61%] Built target tiledb_array_parallel_read_sparse_1 -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 +[ 64%] 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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 61%] Built target tiledb_array_parallel_read_dense_1 +[ 64%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_2.cc +[ 64%] Linking CXX executable tiledb_array_read_sparse_1 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 65%] Linking CXX executable tiledb_array_read_dense_1 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 65%] Built target tiledb_array_read_dense_2 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 -[ 61%] Linking CXX executable tiledb_array_read_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 61%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_2.cc -[ 61%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o +[ 65%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_1.cc -[ 61%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_1.cc +[ 66%] Linking CXX executable tiledb_array_read_dense_sorted +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 66%] Linking CXX executable tiledb_array_read_dense_3 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 66%] Built target tiledb_array_parallel_write_sparse_1 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 62%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_2.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 66%] Built target tiledb_array_parallel_write_sparse_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 +[ 67%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_2.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" -[ 62%] Built target tiledb_array_parallel_read_sparse_2 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 67%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_sorted.cc +[ 68%] Linking CXX executable tiledb_array_read_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 68%] Built target tiledb_array_primitive 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 +[ 68%] Linking CXX executable test_uri make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 63%] Linking CXX executable tiledb_array_read_dense_1 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o +[ 68%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_1.cc -[ 63%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_sorted.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +[ 68%] Linking CXX executable tiledb_array_read_sparse_filter_1 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 63%] Built target tiledb_array_parallel_write_dense_1 +[ 68%] Built target tiledb_array_read_dense_3 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 -[ 63%] Built target tiledb_array_parallel_read_dense_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 69%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_2.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 69%] 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 64%] Linking CXX executable tiledb_array_read_dense_3 -[ 64%] Linking CXX executable tiledb_array_read_dense_sorted -cd /build/reproducible-path/genomicsdb-1.5.4/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 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -[ 65%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o +[ 69%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 65%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_2.cc cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_1.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 65%] Built target tiledb_array_parallel_write_sparse_2 +[ 69%] Built target tiledb_array_read_sparse_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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 70%] Linking CXX executable tiledb_array_read_sparse_sorted +cd /build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 +[ 70%] Built target tiledb_array_read_dense_sorted make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 65%] Built target tiledb_array_parallel_write_dense_2 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" -[ 65%] Built target tiledb_array_parallel_write_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 -[ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" +[ 71%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_2.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 66%] Linking CXX executable tiledb_array_read_sparse_filter_1 -[ 66%] 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-1.5.4/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 +[ 71%] Built target test_uri +[ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o +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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc -[ 66%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_2.cc +[ 71%] Linking CXX executable tiledb_array_read_sparse_filter_2 +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 +[ 71%] Built target tiledb_array_read_sparse_2 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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/depend +[ 71%] Linking CXX executable tiledb_array_update_dense_1 +cd /build/reproducible-path/genomicsdb-1.5.4/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]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" +[ 71%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_2.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o +[ 71%] Linking CXX executable tiledb_array_update_dense_2 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_sorted.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 67%] Built target tiledb_array_read_dense_2 +[ 72%] Built target tiledb_array_read_sparse_filter_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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" -[ 67%] Built target tiledb_array_primitive -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 72%] Linking CXX executable tiledb_array_update_sparse_1 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 72%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_1.cc +[ 72%] Linking CXX executable tiledb_array_update_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 73%] Linking CXX executable tiledb_array_write_dense_1 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +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, + from /usr/include/catch2/interfaces/catch_interfaces_capture.hpp:13, + from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, + from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, + from /usr/include/catch2/catch_all.hpp:25, + from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2/catch.h:39, + from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:39: +In function 'void* memcpy(void*, const void*, size_t)', + inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:184:11: +/usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] + 29 | return __builtin___memcpy_chk (__dest, __src, __len, + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ + 30 | __glibc_objsize0 (__dest)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': +/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:10: note: source object 'j' of size 8 + 181 | double j = 0.1, k = 0.2; + | ^ +In function 'void* memcpy(void*, const void*, size_t)', + inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:186:11: +/usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] + 29 | return __builtin___memcpy_chk (__dest, __src, __len, + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ + 30 | __glibc_objsize0 (__dest)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': +/build/reproducible-path/genomicsdb-1.5.4/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; + | ^ +In function 'void* memcpy(void*, const void*, size_t)', + inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:191:11: +/usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] + 29 | return __builtin___memcpy_chk (__dest, __src, __len, + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ + 30 | __glibc_objsize0 (__dest)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': +/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:10: note: source object 'j' of size 8 + 181 | double j = 0.1, k = 0.2; + | ^ +In function 'void* memcpy(void*, const void*, size_t)', + inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:192:11: +/usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] + 29 | return __builtin___memcpy_chk (__dest, __src, __len, + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ + 30 | __glibc_objsize0 (__dest)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': +/build/reproducible-path/genomicsdb-1.5.4/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; + | ^ +In function 'void* memcpy(void*, const void*, size_t)', + inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:196:11: +/usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] + 29 | return __builtin___memcpy_chk (__dest, __src, __len, + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ + 30 | __glibc_objsize0 (__dest)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': +/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:10: note: source object 'j' of size 8 + 181 | double j = 0.1, k = 0.2; + | ^ +In function 'void* memcpy(void*, const void*, size_t)', + inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:198:11: +/usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] + 29 | return __builtin___memcpy_chk (__dest, __src, __len, + | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ + 30 | __glibc_objsize0 (__dest)); + | ~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': +/build/reproducible-path/genomicsdb-1.5.4/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; + | ^ +[ 73%] Linking CXX executable tiledb_array_write_dense_sorted +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +[ 73%] Built target tiledb_array_read_sparse_sorted +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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -[ 67%] Linking CXX executable tiledb_array_read_sparse_1 -[ 67%] Linking CXX executable tiledb_array_read_sparse_filter_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/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 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 67%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_1.cc +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" +[ 73%] Built target tiledb_array_update_dense_1 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" -[ 67%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_2.cc +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o +[ 73%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_2.cc +[ 73%] Linking CXX executable tiledb_array_write_dense_2 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 73%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_3.cc -[ 68%] Linking CXX executable tiledb_array_read_sparse_2 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 68%] Built target tiledb_array_read_dense_1 +[ 73%] Built target tiledb_array_read_sparse_filter_2 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" +[ 73%] Built target tiledb_array_update_dense_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-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 68%] Linking CXX executable tiledb_array_update_dense_2 -[ 68%] Linking CXX executable tiledb_array_update_sparse_2 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 68%] Linking CXX executable tiledb_array_update_sparse_1 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_4.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 69%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o +[ 73%] 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-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_4.cc +[ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_catching_errors.cc -[ 69%] Linking CXX executable tiledb_array_update_dense_1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 69%] Linking CXX executable test_mem_utils -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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 +[ 74%] Linking CXX executable test_array_schema_api +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 70%] Linking CXX executable tiledb_array_read_sparse_sorted -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 71%] Linking CXX executable tiledb_array_write_dense_1 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 71%] Built target tiledb_array_read_dense_3 -[ 71%] Built target tiledb_array_read_dense_sorted +[ 75%] Linking CXX executable test_dense_array_api +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 75%] Built target tiledb_array_update_sparse_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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 72%] Linking CXX executable tiledb_array_write_sparse_1 +[ 76%] Linking CXX executable tiledb_array_write_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.4/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_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_clear_delete_move.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build +[ 76%] Built target tiledb_array_write_dense_1 +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-1.5.4/obj-x86_64-linux-gnu' -[ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_clear_delete_move.cc -[ 72%] Linking CXX executable tiledb_array_write_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_config.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 72%] Linking CXX executable tiledb_array_write_dense_sorted -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 72%] Built target tiledb_array_read_sparse_filter_1 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 76%] Built target tiledb_array_update_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend +[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_config.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build -[ 73%] Linking CXX executable tiledb_array_write_sparse_3 -cd /build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o +[ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_delete.cc -[ 74%] Linking CXX executable tiledb_array_write_sparse_2 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4=. -fstack-protector-strong -fstack-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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 74%] Built target test_mem_utils +[ 78%] Linking CXX executable tiledb_array_write_sparse_3 +cd /build/reproducible-path/genomicsdb-1.5.4/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 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -[ 74%] Built target tiledb_array_read_sparse_1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_ls.cc +[ 78%] Linking CXX executable tiledb_array_write_sparse_4 +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_catching_errors.dir/link.txt --verbose=1 +[ 79%] Linking CXX executable tiledb_clear_delete_move +cd /build/reproducible-path/genomicsdb-1.5.4/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 +[ 79%] Linking CXX executable tiledb_array_write_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.4/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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +[ 79%] 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[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" -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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 74%] Built target tiledb_array_read_sparse_2 +[ 79%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_ls_workspaces.cc +[ 79%] Linking CXX executable tiledb_config +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 79%] Built target tiledb_array_write_sparse_1 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 74%] Built target tiledb_array_read_sparse_filter_2 -[ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o +[ 79%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_consolidate.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_ls.cc -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build -[ 74%] Linking CXX executable tiledb_catching_errors +[ 79%] Built target tiledb_array_write_sparse_3 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/depend -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_catching_errors.dir/link.txt --verbose=1 -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" -[ 74%] Linking CXX executable tiledb_array_write_sparse_4 -cd /build/reproducible-path/genomicsdb-1.5.4/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 -[ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_consolidate.cc -[ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_ls_workspaces.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_create.cc -[ 74%] Linking CXX executable test_array_schema -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema.dir/link.txt --verbose=1 -[ 75%] Linking CXX executable tiledb_clear_delete_move -cd /build/reproducible-path/genomicsdb-1.5.4/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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 75%] Linking CXX executable tiledb_config -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_config.dir/link.txt --verbose=1 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 75%] Built target tiledb_array_update_sparse_1 +[ 79%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_create.cc +[ 79%] Built target test_dense_array_api 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" -[ 75%] Built target tiledb_array_update_sparse_2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 79%] Built target test_array_schema_api make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" -[ 75%] Built target tiledb_array_update_dense_2 -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_iterator.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_primitive.cc +[ 81%] Linking CXX executable tiledb_ls +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls.dir/link.txt --verbose=1 +[ 82%] Linking CXX executable tiledb_metadata_consolidate +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_consolidate.dir/link.txt --verbose=1 +[ 82%] Linking CXX executable tiledb_delete +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 82%] Built target tiledb_array_write_sparse_4 +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_read.cc -[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_iterator.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_primitive.cc -[ 76%] Built target tiledb_array_update_dense_1 +[ 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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4=. -fstack-protector-strong -fstack-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 +[ 82%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_read.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 83%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_update.cc +[ 83%] Linking CXX executable tiledb_ls_workspaces +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 76%] Built target tiledb_array_read_sparse_sorted +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/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 +[ 83%] Built target tiledb_config 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-1.5.4/obj-x86_64-linux-gnu' +[ 83%] 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/depend -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_update.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 77%] Built target tiledb_array_write_dense_1 -[ 77%] Built target tiledb_array_write_sparse_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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 +[ 83%] Built target tiledb_array_write_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_write.cc -[ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o +[ 83%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_workspace_group_create.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 77%] Built target tiledb_array_write_dense_sorted -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 77%] Built target tiledb_array_write_sparse_2 -[ 77%] Built target tiledb_array_write_dense_2 -[ 77%] Linking CXX executable tiledb_delete -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_delete.dir/link.txt --verbose=1 -[ 78%] Linking CXX executable test_codec -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec.dir/link.txt --verbose=1 -[ 78%] Built target tiledb_array_write_sparse_3 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 78%] Built target tiledb_array_write_sparse_4 -[ 78%] Linking CXX executable tiledb_ls_workspaces -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls_workspaces.dir/link.txt --verbose=1 -[ 79%] Linking CXX executable tiledb_metadata_consolidate -[ 79%] Linking CXX executable tiledb_metadata_create -[ 80%] Linking CXX executable tiledb_ls -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_create.dir/link.txt --verbose=1 -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_consolidate.dir/link.txt --verbose=1 -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 80%] Built target tiledb_catching_errors -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 80%] Built target tiledb_config -[ 80%] Linking CXX executable tiledb_metadata_write -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_write.dir/link.txt --verbose=1 -[ 80%] Linking CXX executable tiledb_metadata_iterator +[ 83%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_write.cc +[ 83%] Linking CXX executable tiledb_metadata_iterator cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_iterator.dir/link.txt --verbose=1 -[ 81%] Linking CXX executable tiledb_metadata_primitive -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_primitive.dir/link.txt --verbose=1 -[ 81%] Linking CXX executable tiledb_metadata_read +[ 83%] Linking CXX executable tiledb_metadata_create +cd /build/reproducible-path/genomicsdb-1.5.4/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_read cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_read.dir/link.txt --verbose=1 -[ 81%] Built target tiledb_clear_delete_move -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +[ 84%] Linking CXX executable tiledb_metadata_primitive +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_primitive.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 81%] Linking CXX executable tiledb_metadata_update +[ 84%] Built target tiledb_metadata_consolidate +[ 84%] Linking CXX executable tiledb_metadata_write +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_write.dir/link.txt --verbose=1 +[ 84%] Linking CXX executable tiledb_metadata_update cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_update.dir/link.txt --verbose=1 -[ 81%] Built target test_array_schema -[ 81%] Linking CXX executable test_codec_filter -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec_filter.dir/link.txt --verbose=1 -[ 82%] Linking CXX executable tiledb_workspace_group_create -cd /build/reproducible-path/genomicsdb-1.5.4/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/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 82%] Built target tiledb_delete -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 82%] Linking CXX executable test_filter_api -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_filter_api.dir/link.txt --verbose=1 -[ 82%] Built target tiledb_ls -[ 82%] Built target test_codec -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 82%] Built target test_codec_filter -[ 82%] Linking CXX executable test_uri -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_uri.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +[ 84%] Built target tiledb_ls +[ 85%] Linking CXX executable tiledb_workspace_group_create +cd /build/reproducible-path/genomicsdb-1.5.4/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/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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_ls_workspaces +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 82%] Built target tiledb_metadata_create -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +[ 85%] Built target tiledb_delete +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +[ 85%] Built target tiledb_metadata_iterator +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +[ 85%] Built target tiledb_metadata_create +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 82%] Built target tiledb_metadata_update -[ 82%] Built target tiledb_metadata_primitive -[ 82%] Built target tiledb_metadata_consolidate +[ 85%] Built target tiledb_metadata_primitive /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 82%] Built target tiledb_ls_workspaces -[ 82%] Built target tiledb_metadata_read -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 85%] Built target tiledb_metadata_read /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 82%] Built target tiledb_metadata_iterator -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -[ 82%] Built target tiledb_metadata_write -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 +[ 85%] Built target tiledb_metadata_write +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 82%] Built target test_uri -[ 82%] Built target tiledb_workspace_group_create -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, - from /usr/include/catch2/interfaces/catch_interfaces_capture.hpp:13, - from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, - from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, - from /usr/include/catch2/catch_all.hpp:25, - from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2/catch.h:39, - from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:39: -In function 'void* memcpy(void*, const void*, size_t)', - inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:184:11: -/usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] - 29 | return __builtin___memcpy_chk (__dest, __src, __len, - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ - 30 | __glibc_objsize0 (__dest)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': -/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:10: note: source object 'j' of size 8 - 181 | double j = 0.1, k = 0.2; - | ^ -In function 'void* memcpy(void*, const void*, size_t)', - inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:186:11: -/usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] - 29 | return __builtin___memcpy_chk (__dest, __src, __len, - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ - 30 | __glibc_objsize0 (__dest)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': -/build/reproducible-path/genomicsdb-1.5.4/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; - | ^ -In function 'void* memcpy(void*, const void*, size_t)', - inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:191:11: -/usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] - 29 | return __builtin___memcpy_chk (__dest, __src, __len, - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ - 30 | __glibc_objsize0 (__dest)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': -/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:10: note: source object 'j' of size 8 - 181 | double j = 0.1, k = 0.2; - | ^ -In function 'void* memcpy(void*, const void*, size_t)', - inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:192:11: -/usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] - 29 | return __builtin___memcpy_chk (__dest, __src, __len, - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ - 30 | __glibc_objsize0 (__dest)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': -/build/reproducible-path/genomicsdb-1.5.4/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; - | ^ -In function 'void* memcpy(void*, const void*, size_t)', - inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:196:11: -/usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] - 29 | return __builtin___memcpy_chk (__dest, __src, __len, - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ - 30 | __glibc_objsize0 (__dest)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': -/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:10: note: source object 'j' of size 8 - 181 | double j = 0.1, k = 0.2; - | ^ -In function 'void* memcpy(void*, const void*, size_t)', - inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:198:11: -/usr/include/x86_64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] - 29 | return __builtin___memcpy_chk (__dest, __src, __len, - | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ - 30 | __glibc_objsize0 (__dest)); - | ~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': -/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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 +[ 85%] Built target tiledb_metadata_update +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 82%] Built target test_filter_api -[ 83%] Linking CXX executable test_array_iterator -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_iterator.dir/link.txt --verbose=1 +[ 85%] Built target tiledb_workspace_group_create +[ 86%] Linking CXX executable test_tiledb_utils +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tiledb_utils.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 83%] Built target GenomicsDB_library_object_files +[ 86%] Built target GenomicsDB_library_object_files make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/depend make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' @@ -5168,42 +5224,18 @@ make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.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-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 83%] Linking CXX shared library libgenomicsdb.so -[ 83%] Linking CXX static library libgenomicsdb.a -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledbgenomicsdb.dir/link.txt --verbose=1 +[ 86%] Linking CXX static library libgenomicsdb.a +[ 86%] Linking CXX shared library libgenomicsdb.so cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -P CMakeFiles/genomicsdb.dir/cmake_clean_target.cmake +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledbgenomicsdb.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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 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'/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 86%] Built target test_utils [ 86%] Built target test_tiledb_utils 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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_symlink_library libgenomicsdb.so.1.5.4 libgenomicsdb.so.1 libgenomicsdb.so @@ -5215,39 +5247,18 @@ make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 87%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -[ 87%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o -[ 87%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -[ 87%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o -[ 87%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o +[ 86%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o +[ 86%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader 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-I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong 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-ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources 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-I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -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-1.5.4/src/main/jni/src/genomicsdb_jni_init.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 87%] Built target test_dense_array_api -[ 87%] Built target test_sparse_array_benchmark -[ 87%] Linking CXX executable test_posixfs -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_posixfs.dir/link.txt --verbose=1 -In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:29: -/build/reproducible-path/genomicsdb-1.5.4/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 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api/tiledb.h:44, - from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api/tiledb_utils.h:39, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:25: -/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here - 127 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ +[ 87%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -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-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc +[ 87%] Linking CXX executable test_utils +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_utils.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -5271,46 +5282,24 @@ /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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 87%] Built target test_posixfs In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:24: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:29: /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/vcf2binary.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:23: + from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api/tiledb.h:44, + from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api/tiledb_utils.h:39, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBUtils.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-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniInitializeGenomicsDBImporterObject(JNIEnv*, jobject, jstring, jint)': -/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:102:3: warning: control reaches end of non-void function [-Wreturn-type] - 102 | } - | ^ -/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniSetupGenomicsDBLoader(JNIEnv*, jobject, jlong, jstring)': -/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:159:3: warning: control reaches end of non-void function [-Wreturn-type] - 159 | } - | ^ -/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jboolean Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniImportBatch(JNIEnv*, jobject, jlong, jlongArray)': -/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:231:3: warning: control reaches end of non-void function [-Wreturn-type] - 231 | } - | ^ -[ 87%] Linking CXX executable test_expressions -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 87%] Built target test_utils _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-1.5.4/obj-x86_64-linux-gnu' @@ -5319,137 +5308,103 @@ 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.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 -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" +make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools 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tools/CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" [ 88%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/ctest_main.cc.o -[ 88%] Building CXX object tools/CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -[ 88%] Building CXX object src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o -[ 88%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_config.cc.o -[ 88%] Building CXX object tools/CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -[ 88%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -[ 89%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o -[ 89%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools && /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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -MF CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o.d -o CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf2genomicsdb.cc +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools && /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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o -MF CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o.d -o CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf2genomicsdb_init.cc cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/ctest_main.cc -[ 89%] Building CXX object src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o -[ 89%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o +[ 88%] Building CXX object tools/CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools && /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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -MF CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o.d -o CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/tools/src/create_genomicsdb_workspace.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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 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-I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_non_diploid_mapper.cc -[ 90%] Building CXX object example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp && /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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o -MF CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o.d -o CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_genomicsdb_demo.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_pb.cc -[ 91%] Building CXX object 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tools/CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o -[ 91%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils 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/build/reproducible-path/genomicsdb-1.5.4/example/src/test_genomicsdb_importer.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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 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-I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE 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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_bgen.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_gt_remapper.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_query_variants.cc -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_mem_utils.cc -[ 95%] Linking CXX executable test_sparse_array_api -cd /build/reproducible-path/genomicsdb-1.5.4/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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 95%] Built target test_expressions -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' -[ 95%] Built target test_sparse_array_api +make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 89%] Building CXX object tools/CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o +[ 89%] Building CXX object example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/example/src/test_genomicsdb_bcf_generator.cc +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools && /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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o -MF CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o.d -o CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/tools/src/gt_mpi_gather.cc +[ 90%] Building CXX object tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools && /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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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/vcf_histogram.dir/src/vcf_histogram.cc.o -MF CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o.d -o CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf_histogram.cc +[ 90%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_non_diploid_mapper.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/tools/src/gt_mpi_gather.cc:30: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5460,10 +5415,27 @@ 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-1.5.4/tools/src/gt_mpi_gather.cc:24: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/vcf2binary.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:23: /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-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 90%] Built target test_storage_buffer +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/example /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" +[ 91%] Building CXX object src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_genomicsdb_api.cc +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 92%] Building CXX object example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/example/src/test_genomicsdb_importer.cc +[ 92%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_multid_vector.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -5489,11 +5461,9 @@ | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/tools/include/vcfdiff.h:31, - from /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc:25: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/tools/src/gt_mpi_gather.cc:30: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5504,26 +5474,31 @@ 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-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/tools/include/vcfdiff.h:26: + from /build/reproducible-path/genomicsdb-1.5.4/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 | ^~~~~~~~ +[ 92%] Linking CXX executable test_posixfs +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_posixfs.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, - from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_multid_vector.cc:27: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/tools/include/vcfdiff.h:31, + from /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc:25: /build/reproducible-path/genomicsdb-1.5.4/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/catch2/interfaces/catch_interfaces_capture.hpp:11, - from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, - from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, - from /usr/include/catch2/catch_all.hpp:25, - from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_multid_vector.cc:24: + 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-1.5.4/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.4/tools/include/vcfdiff.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ @@ -5531,25 +5506,32 @@ from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc:31: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, + from /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf_histogram.cc:24: /build/reproducible-path/genomicsdb-1.5.4/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/catch2/interfaces/catch_interfaces_capture.hpp:11, - from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, - from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, - from /usr/include/catch2/catch_all.hpp:25, - from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc:29: + 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-1.5.4/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/vcf2binary.h:26, + from /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf_histogram.cc:23: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc: In constructor 'VCFDiffFile::VCFDiffFile(const std::string&, const std::string&)': -/build/reproducible-path/genomicsdb-1.5.4/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))); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc:83:41: 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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_pb.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 93%] Built target test_posixfs +[ 93%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_logger.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -5574,33 +5556,6 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc: In member function 'void VCFDiffFile::compare_line(const bcf_hdr_t*, bcf1_t*)': -/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/tools/src/vcfdiff.cc:591:33: note: remove 'std::move' call -/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/tools/src/vcfdiff.cc:592:33: note: remove 'std::move' call -In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_query_variants.cc:31: -/build/reproducible-path/genomicsdb-1.5.4/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/catch2/interfaces/catch_interfaces_capture.hpp:11, - from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, - from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, - from /usr/include/catch2/catch_all.hpp:25, - from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_query_variants.cc:28: -/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-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -5620,14 +5575,15 @@ /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +[ 93%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/genomicsdb_importer.h:25, - from /build/reproducible-path/genomicsdb-1.5.4/example/src/test_genomicsdb_importer.cc:26: + from /build/reproducible-path/genomicsdb-1.5.4/tools/src/consolidate_genomicsdb_array.cc:29: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5638,18 +5594,23 @@ 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-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/example/src/test_genomicsdb_importer.cc:25: + from /build/reproducible-path/genomicsdb-1.5.4/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 | ^~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc: In constructor 'VCFDiffFile::VCFDiffFile(const std::string&, const std::string&)': +/build/reproducible-path/genomicsdb-1.5.4/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))); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc:83:41: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf_histogram.cc:24: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/genomicsdb_importer.h:25, + from /build/reproducible-path/genomicsdb-1.5.4/example/src/test_genomicsdb_importer.cc:26: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5661,52 +5622,122 @@ from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/vcf2binary.h:26, - from /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf_histogram.cc:23: + from /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/tools/src/vcfdiff.cc: In member function 'void VCFDiffFile::compare_line(const bcf_hdr_t*, bcf1_t*)': +/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/tools/src/vcfdiff.cc:591:33: note: remove 'std::move' call +/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/tools/src/vcfdiff.cc:592:33: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, - from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.4/tools/src/consolidate_genomicsdb_array.cc:29: + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, + from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_multid_vector.cc:27: /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/tools/src/consolidate_genomicsdb_array.cc:26: + from /usr/include/catch2/interfaces/catch_interfaces_capture.hpp:11, + from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, + from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, + from /usr/include/catch2/catch_all.hpp:25, + from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_multid_vector.cc:24: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +[ 93%] Linking CXX executable test_sparse_array_api +cd /build/reproducible-path/genomicsdb-1.5.4/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 /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf2genomicsdb.cc: In function 'int main(int, char**)': /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/tools/src/vcf2genomicsdb.cc:165:45: note: remove 'std::move' call -[ 96%] Linking CXX executable test_genomicsdb_bcf_generator +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 93%] Built target test_sparse_array_api +[ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_htslib_plugin.cc +In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc:31: +/build/reproducible-path/genomicsdb-1.5.4/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/catch2/interfaces/catch_interfaces_capture.hpp:11, + from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, + from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, + from /usr/include/catch2/catch_all.hpp:25, + from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc:29: +/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_bcf_generator cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_bcf_generator.dir/link.txt --verbose=1 +/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniInitializeGenomicsDBImporterObject(JNIEnv*, jobject, jstring, jint)': +/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:102:3: warning: control reaches end of non-void function [-Wreturn-type] + 102 | } + | ^ +/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniSetupGenomicsDBLoader(JNIEnv*, jobject, jlong, jstring)': +/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:159:3: warning: control reaches end of non-void function [-Wreturn-type] + 159 | } + | ^ +/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jboolean Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniImportBatch(JNIEnv*, jobject, jlong, jlongArray)': +/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:231:3: warning: control reaches end of non-void function [-Wreturn-type] + 231 | } + | ^ +[ 95%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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_alleles_combiner.cc.o -MF CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o.d -o CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_alleles_combiner.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 96%] Built target test_genomicsdb_bcf_generator -[ 96%] Linking CXX shared library libgenomicsdbjni.so -cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 96%] Built target genomicsdbjni +[ 95%] Built target test_genomicsdb_bcf_generator +[ 95%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_gt_remapper.cc +[ 96%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_bgen.cc +[ 96%] Linking CXX executable test_expressions +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_expressions.dir/link.txt --verbose=1 [ 96%] Linking CXX executable gt_mpi_gather cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/gt_mpi_gather.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-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-1.5.4/obj-x86_64-linux-gnu' +[ 96%] Built target test_expressions +[ 96%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_query_variants.cc +[ 96%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/src/test/cpp/src/test_mem_utils.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' [ 96%] Built target gt_mpi_gather +In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_query_variants.cc:31: +/build/reproducible-path/genomicsdb-1.5.4/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/catch2/interfaces/catch_interfaces_capture.hpp:11, + from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, + from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, + from /usr/include/catch2/catch_all.hpp:25, + from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_query_variants.cc:28: +/usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here + 127 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ [ 96%] Linking CXX executable create_genomicsdb_workspace cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/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 @@ -5719,28 +5750,33 @@ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' [ 97%] Built target vcfdiff -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 97%] Built target test_genomicsdb_demo -[ 97%] Linking CXX executable test_genomicsdb_importer -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_importer.dir/link.txt --verbose=1 [ 97%] Linking CXX executable vcf_histogram cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf_histogram.dir/link.txt --verbose=1 [ 98%] Linking CXX executable consolidate_genomicsdb_array cd /build/reproducible-path/genomicsdb-1.5.4/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 api_tests -cd /build/reproducible-path/genomicsdb-1.5.4/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 shared library libgenomicsdbjni.so +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdbjni.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 98%] Built target test_genomicsdb_demo +/usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 98%] Built target genomicsdbjni /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' [ 98%] Built target vcf_histogram +[ 98%] Linking CXX executable test_genomicsdb_importer +cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' [ 98%] Built target consolidate_genomicsdb_array -[ 98%] Built target test_genomicsdb_importer +[ 98%] Linking CXX executable api_tests +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/api_tests.dir/link.txt --verbose=1 [ 99%] Linking CXX executable vcf2genomicsdb cd /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 99%] Built target test_genomicsdb_importer /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E tar xzf /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/../inputs/test.tgz make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' @@ -5944,18 +5980,18 @@ [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ -[INFO] Total time: 9.250 s -[INFO] Finished at: 2026-03-29T00:40:38-12:00 +[INFO] Total time: 01:06 min +[INFO] Finished at: 2025-02-24T20:49:22+14:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4' jh_build -O--buildsystem=cmake debian/rules override_dh_auto_test-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4' dh_auto_test -a || true - cd obj-x86_64-linux-gnu && make -j42 test ARGS\+=--verbose ARGS\+=-j42 + cd obj-x86_64-linux-gnu && make -j20 test ARGS\+=--verbose ARGS\+=-j20 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' Running tests... -/usr/bin/ctest --force-new-ctest-process --verbose -j42 +/usr/bin/ctest --force-new-ctest-process --verbose -j20 UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu @@ -6086,19 +6122,7 @@ 20: Test command: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests "-d" "yes" 20: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp 20: Test timeout computed to be: 10000000 -test 21 - Start 21: api_tests - -21: Test command: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/api_tests "-d" "yes" -21: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/tests/test_tools.sh "/build/reproducible-path/genomicsdb-1.5.4/tests/inputs/vcfs" "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools" "1" -22: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools -22: Test timeout computed to be: 10000000 -1: Randomness seeded to: 1377528041 +1: Randomness seeded to: 2663967039 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. @@ -6265,23 +6289,23 @@ 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: 1852672241 +4: Randomness seeded to: 2280814276 4: =============================================================================== 4: test cases: 1 | 1 passed 4: assertions: - none - 4: -6: Randomness seeded to: 3587151971 +6: Randomness seeded to: 3085406728 6: =============================================================================== 6: All tests passed (335 assertions in 13 test cases) 6: -9: Randomness seeded to: 3740991005 -9: [TileDB::utils] Error: (set_working_dir) Failed to set_working_dir as /tmp/TileDBTestkT8Y3G/WORKSPACE.nonexistent does not exist -9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestj4kPzu/WORKSPACE errno=2(No such file or directory) -9: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=/tmp/TileDBTestj4kPzu/WORKSPACE errno=2(No such file or directory) -9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestrOavEd/WORKSPACE errno=2(No such file or directory) -9: 7e820c3ee657b1a27a56a7be9d202a7a7e820c3ee657b1a27a56a7be9d202a7a[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTest68Lsc1/test_file -9: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTest68Lsc1/test_file -10: Randomness seeded to: 4094963533 +9: Randomness seeded to: 2941432478 +9: [TileDB::utils] Error: (set_working_dir) Failed to set_working_dir as /tmp/TileDBTestECPsIX/WORKSPACE.nonexistent does not exist +9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTesttEOeSp/WORKSPACE errno=2(No such file or directory) +9: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=/tmp/TileDBTesttEOeSp/WORKSPACE errno=2(No such file or directory) +9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestrDq6DZ/WORKSPACE errno=2(No such file or directory) +9: 7e820c3ee657b1a27a56a7be9d202a7a7e820c3ee657b1a27a56a7be9d202a7a[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTesttdKfHT/test_file +9: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTesttdKfHT/test_file +10: Randomness seeded to: 260018869 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 @@ -6292,7 +6316,7 @@ 10: =============================================================================== 10: All tests passed (31 assertions in 5 test cases) 10: -11: Randomness seeded to: 278094093 +11: Randomness seeded to: 2145788415 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. @@ -6324,7 +6348,7 @@ 11: =============================================================================== 11: All tests passed (192 assertions in 2 test cases) 11: -12: Randomness seeded to: 130138960 +12: Randomness seeded to: 1774419874 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: @@ -6370,13 +6394,13 @@ 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: 2467622461 -14: Sun Mar 29 00:40:39 2026 Memory stats Tracking memory usage START size=6MB resident=3MB share=3MB text=496KB lib=0 data=536KB dt=0 -15: Randomness seeded to: 50543343 +14: Randomness seeded to: 2997245549 +14: Mon Feb 24 20:49:32 2025 Memory stats Tracking memory usage START size=6MB resident=2MB share=1MB text=496KB lib=0 data=536KB dt=0 +15: Randomness seeded to: 4008905277 15: =============================================================================== 15: All tests passed (113 assertions in 1 test case) 15: -16: Randomness seeded to: 3144095981 +16: Randomness seeded to: 1857917611 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 @@ -6390,18 +6414,29 @@ 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: 69792899 -17: [TileDB::FileSystem] Error: (create_dir) Cannot create directory; Directory already exists path=/tmp/TileDBTest9uj02Y/test_posixfs_dirdir +16: =============================================================================== +16: All tests passed (86 assertions in 6 test cases) +16: +17: Randomness seeded to: 1726574583 +17: [TileDB::FileSystem] Error: (create_dir) Cannot create directory; Directory already exists path=/tmp/TileDBTest8yCnFP/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/TileDBTest9uj02Y/test_posixfs_dirdir errno=21(Is a directory) -17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTest9uj02Y/test_posixfs_dirdir errno=21(Is a directory) +17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTest8yCnFP/test_posixfs_dirdir errno=21(Is a directory) +17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTest8yCnFP/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: 1003028367 -18: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTestULpEDv/test-file -18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/tmp/TileDBTestULpEDv/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/TileDBTestULpEDv/test-file -18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestULpEDv/test-file +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) +17: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/tmp/TileDBTestduvxlB/test_posixfs_dirfile/foo1 errno=2(No such file or directory) +17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestxaPkNf/test_posixfs_dirread_write/foo +17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestxaPkNf/test_posixfs_dirread_write/foo +17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestxaPkNf/test_posixfs_dirread_write/foo +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) +18: Randomness seeded to: 1577625237 +18: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTestJS9f1u/test-file +18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/tmp/TileDBTestJS9f1u/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/TileDBTestJS9f1u/test-file +18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestJS9f1u/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) @@ -6416,38 +6451,169 @@ 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/TileDBTestH7SWlo/compressed_foo - 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 0.03 sec - 6/22 Test #10: test_codec ....................... Passed 0.02 sec - 7/22 Test #11: test_codec_filter ................ Passed 0.02 sec - 8/22 Test #15: test_uri ......................... Passed 0.02 sec +18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestvqFKva/compressed_foo + 1/22 Test #1: test_array_schema ................ Passed 0.46 sec + 2/22 Test #2: test_print_array_schema .......... Passed 0.45 sec + 3/22 Test #3: test_print_book_keeping .......... Passed 0.44 sec + 4/22 Test #4: test_sparse_array_benchmark ...... Passed 0.42 sec + 5/22 Test #6: test_array_schema_api ............ Passed 0.38 sec + 6/22 Test #10: test_codec ....................... Passed 0.28 sec + 7/22 Test #11: test_codec_filter ................ Passed 0.25 sec + 8/22 Test #15: test_uri ......................... Passed 0.17 sec + 9/22 Test #16: test_utils ....................... Passed 0.14 sec +13: Randomness seeded to: 1921385815 +13: =============================================================================== +13: All tests passed (288 assertions in 3 test cases) +13: +10/22 Test #13: test_filter_api .................. Passed 0.21 sec +test 21 + Start 21: api_tests + +21: Test command: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/api_tests "-d" "yes" +21: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/tests/test_tools.sh "/build/reproducible-path/genomicsdb-1.5.4/tests/inputs/vcfs" "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools" "1" +22: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools +22: Test timeout computed to be: 10000000 19: Example 1: Running ./tiledb_workspace_group_create... -19: Example 1: Done running ./tiledb_workspace_group_create 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 0.03 sec -19: Example 2: Running ./tiledb_ls_workspaces... -21: Randomness seeded to: 1963685479 -21: 0.000 s: utils +11/22 Test #12: test_expressions ................. Passed 0.33 sec +19: Example 1: Done running ./tiledb_workspace_group_create +21: Randomness seeded to: 2240142577 +21: 0.019 s: utils 21: 0.000 s: api empty_args +17: [TileDB::FileSystem] Error: (read_from_file) Cannot open simultaneously for reads/writes path=test_posixfs_dir_locking/foo +17: [TileDB::FileSystem] Error: (~PosixFS) File does not seem to be closed path=test_dir_locking1/foo_sync +17: [TileDB::FileSystem] Error: (~PosixFS) File does not seem to be closed path=test_dir_locking1/foo_no_close +17: =============================================================================== +17: All tests passed (258 assertions in 11 test cases) +17: +19: Example 2: Running ./tiledb_ls_workspaces... +12/22 Test #17: test_posixfs ..................... Passed 0.32 sec 19: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=&& errno=2(No such file or directory) +21: 0.149 s: api query_variants direct DP +5: Randomness seeded to: 485936675 +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: 19: Example 2: Done running ./tiledb_ls_workspaces -13: Randomness seeded to: 1324207194 -13: =============================================================================== -13: All tests passed (288 assertions in 3 test cases) -13: -10/22 Test #13: test_filter_api .................. Passed 0.03 sec +13/22 Test #5: test_array_iterator .............. Passed 0.71 sec 19: Example 3: Running ./tiledb_array_create_dense... +21: 0.082 s: api query_variants direct DP with huge row range 19: Example 3: Done running ./tiledb_array_create_dense 19: Example 4: Running ./tiledb_array_create_sparse... +20: 20:49:32.666 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:32.666 WARN NativeGenomicsDB - pid=3812480 tid=3812480 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 20:49:32.666 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +20: Randomness seeded to: 444238555 +20: 0.004 s: Check loader configuration with json file +20: 20:49:32.667 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:32.667 WARN NativeGenomicsDB - pid=3812480 tid=3812480 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 20:49:32.668 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.083 s: api query_variants direct DP with huge disjoint row ranges +20: 0.017 s: Check configuration with json file +20: 20:49:32.685 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:32.685 WARN NativeGenomicsDB - pid=3812480 tid=3812480 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 20:49:32.685 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +20: 0.002 s: Check configuration with json file and shared posifs optim +20: 20:49:32.686 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:32.686 WARN NativeGenomicsDB - pid=3812480 tid=3812480 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 20:49:32.687 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 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 +20: 0.000 s: genotype_ordering diploid_3_alleles +20: 0.000 s: genotype_ordering diploid_4_alleles +20: 0.000 s: genotype_ordering triploid_2_alleles +20: 0.000 s: genotype_ordering triploid_3_alleles +20: 0.000 s: genotype_ordering triploid_4_alleles +20: 0.000 s: genotype_ordering triploid_4_alleles_reordered_alleles +20: 0.000 s: genotype_ordering triploid_4_alleles_reordered_alleles_without_NON_REF +20: 0.000 s: multid_vector 2D_test +20: 0.000 s: multid_vector 3D_test +20: 0.000 s: multid_vector 2D_test_with_missing_values +20: 0.000 s: multid_vector 2D_float_test +20: 0.000 s: multid_vector 2D_tuple_test +20: 0.000 s: pb_query_config_test +20: 0.022 s: pb_vid_mapping_test +20: 20:49:32.711 INFO NativeGenomicsDB - pid=3812480 tid=3812480 Contig/chromosome 2 begins at TileDB column 249250601 and intersects with contig/chromosome 1 that spans columns [0, 249250620] +20: 0.001 s: pb_overlapping_vid_mapping_test +20: 20:49:32.711 INFO NativeGenomicsDB - pid=3812480 tid=3812480 This is a test +20: 20:49:32.711 WARN NativeGenomicsDB - pid=3812480 tid=3812480 This is a test +20: 20:49:32.711 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 This is a test +20: 20:49:32.711 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 This is a test +20: This is a test +20: This is a test +20: This is a test +20: This is a test +20: This is a once_only test +20: Trying format Hello1 Hello2 +20: 0.000 s: test logger +20: 20:49:32.711 INFO NativeGenomicsDB - pid=3812480 tid=3812480 i=1 str=This is a test +20: 20:49:32.711 WARN NativeGenomicsDB - pid=3812480 tid=3812480 i=2 str=This is a test +20: 20:49:32.711 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 i=3 str=This is a test +20: 20:49:32.711 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 i=4 str=This is a test +20: 20:49:32.711 INFO NativeGenomicsDB - pid=3812480 tid=3812480 i=6 str=This is a once_only test +20: 20:49:32.711 WARN NativeGenomicsDB - pid=3812480 tid=3812480 i=7 str=This is a once_only test +20: 0.000 s: test logger format +20: 20:49:32.711 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 i=1 str=This is a test +20: 20:49:32.711 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 Test Exception +20: 20:49:32.711 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 Test Exception +20: 20:49:32.711 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 Test Exception +20: 20:49:32.712 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 Native Stack Trace: +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa80b2) [0x5652f83690b2] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x98742) [0x5652f8359742] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x258c98) [0x5652f8519c98] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2597b8) [0x5652f851a7b8] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259c30) [0x5652f851ac30] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c943) [0x5652f84ed943] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22ccac) [0x5652f84edcac] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x6ea32) [0x5652f832fa32] +20: /lib/x86_64-linux-gnu/libc.so.6(+0x29d68) [0x7f8a1dc32d68] +20: 20:49:32.712 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 Test Exception +20: 20:49:32.712 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 Native Stack Trace: +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa80b2) [0x5652f83690b2] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x9876f) [0x5652f835976f] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x258c98) [0x5652f8519c98] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2597b8) [0x5652f851a7b8] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259c30) [0x5652f851ac30] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c943) [0x5652f84ed943] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22ccac) [0x5652f84edcac] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x6ea32) [0x5652f832fa32] +20: /lib/x86_64-linux-gnu/libc.so.6(+0x29d68) [0x7f8a1dc32d68] +20: 0.001 s: test logger exceptions +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa80b2) [0x5652f83690b2] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x9bc5f) [0x5652f835cc5f] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x258c98) [0x5652f8519c98] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2597b8) [0x5652f851a7b8] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259c30) [0x5652f851ac30] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c943) [0x5652f84ed943] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22ccac) [0x5652f84edcac] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x6ea32) [0x5652f832fa32] +20: /lib/x86_64-linux-gnu/libc.so.6(+0x29d68) [0x7f8a1dc32d68] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa80b2) [0x5652f83690b2] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x9bc2b) [0x5652f835cc2b] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x258c98) [0x5652f8519c98] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2597b8) [0x5652f851a7b8] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259c30) [0x5652f851ac30] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c943) [0x5652f84ed943] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22ccac) [0x5652f84edcac] +20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x6ea32) [0x5652f832fa32] +20: /lib/x86_64-linux-gnu/libc.so.6(+0x29d68) [0x7f8a1dc32d68] +20: This is a test 19: Example 4: Done running ./tiledb_array_create_sparse +20: 0.000 s: test explicit logger +20: 20:49:32.733 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:32.733 WARN NativeGenomicsDB - pid=3812480 tid=3812480 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 20:49:32.733 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 19: Example 5: Running ./tiledb_array_primitive... 19: Array name: my_workspace/dense_arrays/my_array_A 19: Attributes: a1 a2 a3 @@ -6456,41 +6622,65 @@ 19: Attributes: a1 a2 a3 19: The array is sparse 19: Example 5: Done running ./tiledb_array_primitive -21: 0.031 s: api query_variants direct DP 19: Example 6: Running ./tiledb_array_write_dense_1... -21: 0.012 s: api query_variants direct DP with huge row range -21: 0.012 s: api query_variants direct DP with huge disjoint row ranges -21: 0.020 s: api query_variants direct DP with range composed of multiple points -21: 0.020 s: api query_variants direct DP with range composed of overlapping ranges -21: 00:40:39.579 ERROR NativeGenomicsDB - pid=544933 tid=544933 Query interval 0:-100-1 is out of bounds -21: 0.007 s: api query_variants direct DP with invalid row range -21: 0.036 s: api query_variants direct DP and GT -21: 0.031 s: api query_variants direct DP and GT with PP -21: 00:40:39.648 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.648 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.649 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.659 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.659 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.660 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.671 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.671 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.671 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.025 s: api query_variants with json -21: 00:40:39.672 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.672 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.672 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +20: 0.176 s: gvcf iterator +20: 20:49:32.932 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:32.933 WARN NativeGenomicsDB - pid=3812480 tid=3812480 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 20:49:32.933 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.284 s: api query_variants direct DP with range composed of multiple points +19: Example 6: Done running ./tiledb_array_write_dense_1 +19: Example 7: Running ./tiledb_array_write_sparse_1... +20: 0.156 s: columnar_gvcf_iterator_test +20: 20:49:33.081 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 hts_plugin could not find /tmp/GenomicsDB3Z6VYK +20: [TileDB] Error: No TileDB support for URL=dfdfd://ddd. +20: 20:49:33.081 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 htslib_plugin could not open dfdfd://ddd +20: No TileDB support for URL=dfdfd://ddd +20: 20:49:33.081 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 hts_plugin could not find /tmp/GenomicsDB3Z6VYK/foo +20: 20:49:33.081 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 hts_plugin could not find /tmp/GenomicsDB3Z6VYK/foo +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: 20:49:33.081 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 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: 20:49:33.081 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 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: 0.001 s: test htslib plugin +20: 0.000 s: alleles_combiner +20: 0.000 s: gt_remapper +14: Mon Feb 24 20:49:33 2025 Memory stats Tracking memory usage END size=6MB resident=2MB share=1MB text=496KB lib=0 data=536KB dt=0 +14: =============================================================================== +14: test cases: 1 | 1 passed +14: assertions: - none - +14: +14/22 Test #14: test_mem_utils ................... Passed 1.03 sec +19: Example 7: Done running ./tiledb_array_write_sparse_1 +21: 0.310 s: api query_variants direct DP with range composed of overlapping ranges +21: 20:49:33.323 ERROR NativeGenomicsDB - pid=3812510 tid=3812510 Query interval 0:-100-1 is out of bounds +21: 0.050 s: api query_variants direct DP with invalid row range +21: 0.304 s: api query_variants direct DP and GT +21: 0.139 s: api query_variants direct DP and GT with PP +21: 20:49:33.768 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:33.768 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:33.777 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:33.822 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:33.822 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:33.823 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:33.883 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:33.883 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:33.884 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.118 s: api query_variants with json +21: 20:49:33.884 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:33.884 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:33.885 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/ws/t0_1_2/.__consolidation_lock -21: 00:40:39.684 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.684 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.684 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.694 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.694 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.695 DEBUG NativeGenomicsDB - pid=544933 tid=544933 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 json string -21: 00:40:39.696 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.696 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.696 DEBUG NativeGenomicsDB - pid=544933 tid=544933 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 enabled shared posixfs optimizations +21: 20:49:33.935 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:33.935 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:33.936 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:34.004 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:34.004 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:34.013 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.130 s: api query variants with json string +21: 20:49:34.014 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:34.014 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:34.015 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.078 s: api query variants with enabled shared posixfs optimizations 21: ---------------- 21: Interval:[0,9223372036854775806] 21: @@ -6547,109 +6737,7 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 -20: 00:40:39.728 DEBUG NativeGenomicsDB - pid=544931 tid=544931 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.728 WARN NativeGenomicsDB - pid=544931 tid=544931 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 00:40:39.728 DEBUG NativeGenomicsDB - pid=544931 tid=544931 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -20: Randomness seeded to: 4057889383 -20: 0.002 s: Check loader configuration with json file -20: 00:40:39.729 DEBUG NativeGenomicsDB - pid=544931 tid=544931 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.729 WARN NativeGenomicsDB - pid=544931 tid=544931 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 00:40:39.729 DEBUG NativeGenomicsDB - pid=544931 tid=544931 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: 00:40:39.730 DEBUG NativeGenomicsDB - pid=544931 tid=544931 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.730 WARN NativeGenomicsDB - pid=544931 tid=544931 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 00:40:39.730 DEBUG NativeGenomicsDB - pid=544931 tid=544931 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: 00:40:39.731 DEBUG NativeGenomicsDB - pid=544931 tid=544931 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.731 WARN NativeGenomicsDB - pid=544931 tid=544931 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 00:40:39.731 DEBUG NativeGenomicsDB - pid=544931 tid=544931 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 -20: 0.000 s: genotype_ordering diploid_3_alleles -20: 0.000 s: genotype_ordering diploid_4_alleles -20: 0.000 s: genotype_ordering triploid_2_alleles -20: 0.000 s: genotype_ordering triploid_3_alleles -20: 0.000 s: genotype_ordering triploid_4_alleles -20: 0.000 s: genotype_ordering triploid_4_alleles_reordered_alleles -20: 0.000 s: genotype_ordering triploid_4_alleles_reordered_alleles_without_NON_REF -20: 0.000 s: multid_vector 2D_test -20: 0.000 s: multid_vector 3D_test -20: 0.000 s: multid_vector 2D_test_with_missing_values -20: 0.000 s: multid_vector 2D_float_test -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: 00:40:39.733 INFO NativeGenomicsDB - pid=544931 tid=544931 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: 00:40:39.733 INFO NativeGenomicsDB - pid=544931 tid=544931 This is a test -20: 00:40:39.733 WARN NativeGenomicsDB - pid=544931 tid=544931 This is a test -20: 00:40:39.733 ERROR NativeGenomicsDB - pid=544931 tid=544931 This is a test -20: 00:40:39.733 DEBUG NativeGenomicsDB - pid=544931 tid=544931 This is a test -20: This is a test -20: This is a test -20: This is a test -20: This is a test -20: This is a once_only test -20: Trying format Hello1 Hello2 -20: 0.000 s: test logger -20: 00:40:39.733 INFO NativeGenomicsDB - pid=544931 tid=544931 i=1 str=This is a test -20: 00:40:39.733 WARN NativeGenomicsDB - pid=544931 tid=544931 i=2 str=This is a test -20: 00:40:39.733 ERROR NativeGenomicsDB - pid=544931 tid=544931 i=3 str=This is a test -20: 00:40:39.733 DEBUG NativeGenomicsDB - pid=544931 tid=544931 i=4 str=This is a test -20: 00:40:39.733 INFO NativeGenomicsDB - pid=544931 tid=544931 i=6 str=This is a once_only test -20: 00:40:39.733 WARN NativeGenomicsDB - pid=544931 tid=544931 i=7 str=This is a once_only test -20: 0.000 s: test logger format -20: 00:40:39.734 ERROR NativeGenomicsDB - pid=544931 tid=544931 i=1 str=This is a test -20: 00:40:39.734 ERROR NativeGenomicsDB - pid=544931 tid=544931 Test Exception -20: 00:40:39.734 ERROR NativeGenomicsDB - pid=544931 tid=544931 Test Exception -20: 00:40:39.734 ERROR NativeGenomicsDB - pid=544931 tid=544931 Test Exception -20: 00:40:39.734 ERROR NativeGenomicsDB - pid=544931 tid=544931 Native Stack Trace: -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa80b2) [0x557d94f850b2] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x98742) [0x557d94f75742] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x258c98) [0x557d95135c98] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2597b8) [0x557d951367b8] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259c30) [0x557d95136c30] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c943) [0x557d95109943] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22ccac) [0x557d95109cac] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x6ea32) [0x557d94f4ba32] -20: /lib/x86_64-linux-gnu/libc.so.6(+0x29d68) [0x7f8c6ec33d68] -20: 00:40:39.734 ERROR NativeGenomicsDB - pid=544931 tid=544931 Test Exception -20: 00:40:39.734 ERROR NativeGenomicsDB - pid=544931 tid=544931 Native Stack Trace: -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa80b2) [0x557d94f850b2] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x9876f) [0x557d94f7576f] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x258c98) [0x557d95135c98] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2597b8) [0x557d951367b8] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259c30) [0x557d95136c30] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c943) [0x557d95109943] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22ccac) [0x557d95109cac] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x6ea32) [0x557d94f4ba32] -20: /lib/x86_64-linux-gnu/libc.so.6(+0x29d68) [0x7f8c6ec33d68] -20: 0.000 s: test logger exceptions -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa80b2) [0x557d94f850b2] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x9bc5f) [0x557d94f78c5f] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x258c98) [0x557d95135c98] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2597b8) [0x557d951367b8] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259c30) [0x557d95136c30] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c943) [0x557d95109943] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22ccac) [0x557d95109cac] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x6ea32) [0x557d94f4ba32] -20: /lib/x86_64-linux-gnu/libc.so.6(+0x29d68) [0x7f8c6ec33d68] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa80b2) [0x557d94f850b2] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x9bc2b) [0x557d94f78c2b] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x258c98) [0x557d95135c98] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x2597b8) [0x557d951367b8] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259c30) [0x557d95136c30] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c943) [0x557d95109943] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22ccac) [0x557d95109cac] -20: /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x6ea32) [0x557d94f4ba32] -20: /lib/x86_64-linux-gnu/libc.so.6(+0x29d68) [0x7f8c6ec33d68] -20: This is a test -20: 0.000 s: test explicit logger -20: 00:40:39.734 DEBUG NativeGenomicsDB - pid=544931 tid=544931 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.734 WARN NativeGenomicsDB - pid=544931 tid=544931 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.027 s: api query_variant_calls direct -20: 00:40:39.735 DEBUG NativeGenomicsDB - pid=544931 tid=544931 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.300 s: api query_variant_calls direct 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6678,25 +6766,7 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -20: 0.014 s: gvcf iterator -20: 00:40:39.749 DEBUG NativeGenomicsDB - pid=544931 tid=544931 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.749 WARN NativeGenomicsDB - pid=544931 tid=544931 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 00:40:39.749 DEBUG NativeGenomicsDB - pid=544931 tid=544931 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -20: 0.009 s: columnar_gvcf_iterator_test -21: 0.024 s: api query_variant_calls direct DP and GT -20: 00:40:39.758 ERROR NativeGenomicsDB - pid=544931 tid=544931 hts_plugin could not find /tmp/GenomicsDBh1ER5I -20: [TileDB] Error: No TileDB support for URL=dfdfd://ddd. -20: 00:40:39.758 ERROR NativeGenomicsDB - pid=544931 tid=544931 htslib_plugin could not open dfdfd://ddd -20: No TileDB support for URL=dfdfd://ddd -20: 00:40:39.758 ERROR NativeGenomicsDB - pid=544931 tid=544931 hts_plugin could not find /tmp/GenomicsDBh1ER5I/foo -20: 00:40:39.758 ERROR NativeGenomicsDB - pid=544931 tid=544931 hts_plugin could not find /tmp/GenomicsDBh1ER5I/foo -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: 00:40:39.758 ERROR NativeGenomicsDB - pid=544931 tid=544931 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: 00:40:39.758 ERROR NativeGenomicsDB - pid=544931 tid=544931 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: 0.001 s: test htslib plugin -20: 0.000 s: alleles_combiner -20: 0.000 s: gt_remapper +21: 0.475 s: api query_variant_calls direct DP and GT 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6725,10 +6795,10 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 0.024 s: api query_variant_calls direct DP and GT with PP -21: 00:40:39.782 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.782 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.782 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.477 s: api query_variant_calls direct DP and GT with PP +21: 20:49:35.369 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.369 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.369 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 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: @@ -6757,22 +6827,20 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 -21: 00:40:39.793 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.793 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.793 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.800 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.800 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.800 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.019 s: api query_variant_calls with json -21: 00:40:39.801 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.801 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.801 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -17: [TileDB::FileSystem] Error: (delete_dir) Could not recursively delete directory path=non-existent-dir errno=2(No such file or directory) -21: 00:40:39.802 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.802 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.802 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.802 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: (get_files) Cannot open directory path=non-existent-dir errno=2(No such file or directory) +21: 20:49:35.452 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.452 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.452 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:35.503 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.503 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.504 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.145 s: api query_variant_calls with json +21: 20:49:35.514 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.514 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.514 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:35.515 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.515 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.516 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.516 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -6801,13 +6869,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.811 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.811 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.812 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.812 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.812 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.813 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.813 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.616 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.628 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.629 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:35.630 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.630 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.631 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.631 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -6836,22 +6904,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.822 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.822 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.823 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.823 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.823 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.824 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.824 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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 contig intervals instead of tiledb column intervals -21: 0.030 s: api query_variant_calls with protobuf -21: 00:40:39.830 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.830 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.831 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.831 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.831 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.832 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.832 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.708 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.716 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.717 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:35.718 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.718 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.719 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.719 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.053 s: Try query with contig intervals instead of tiledb column intervals +21: 0.255 s: api query_variant_calls with protobuf +21: 20:49:35.769 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.769 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.770 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:35.771 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.771 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.771 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.771 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -6880,13 +6948,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.841 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.841 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.842 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.842 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.842 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.843 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.843 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.850 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.851 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.851 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:35.852 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.852 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.861 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.861 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -6915,22 +6983,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.852 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.852 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.853 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.853 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.853 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.853 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.854 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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 -21: 0.030 s: api query_variant_calls with protobuf -21: 00:40:39.861 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.861 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.861 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.862 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.862 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.862 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.862 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.932 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.944 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.945 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:35.946 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.946 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.947 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.947 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.065 s: Try query with a filter +21: 0.229 s: api query_variant_calls with protobuf +21: 20:49:35.998 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.998 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:35.998 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:35.999 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:35.999 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.000 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.000 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -6959,13 +7027,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.872 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.872 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.872 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.873 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.873 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.873 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.873 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.131 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.131 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.131 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:36.148 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.149 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.149 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.149 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -6994,22 +7062,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.882 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.883 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.883 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.883 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.883 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.884 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.884 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.030 s: api query_variant_calls with protobuf -21: 00:40:39.890 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.890 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.891 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.891 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.891 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.892 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.892 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.277 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.277 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.277 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:36.278 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.278 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.279 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.279 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.102 s: Try query with a filter and workspace with GT ploidy +21: 0.369 s: api query_variant_calls with protobuf +21: 20:49:36.367 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.367 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.368 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:36.389 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.389 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.390 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.390 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -7038,13 +7106,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.901 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.901 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.902 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.902 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.902 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.903 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.903 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.551 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.551 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.552 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:36.573 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.574 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.574 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.574 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -7073,22 +7141,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.912 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.912 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.912 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.912 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.913 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.913 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.913 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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 a small segment size to force TileDB buffers overflow -21: 0.029 s: api query_variant_calls with protobuf -21: 00:40:39.919 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.919 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.920 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.920 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.920 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.920 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.920 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.738 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.738 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.738 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:36.739 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.739 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.740 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.740 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.121 s: Try query with a filter and a small segment size to force TileDB buffers overflow +21: 0.491 s: api query_variant_calls with protobuf +21: 20:49:36.858 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.858 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.859 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:36.860 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.860 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:36.880 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:36.880 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -7117,13 +7185,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.929 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.929 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.930 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.930 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.930 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.930 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.930 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.012 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.028 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.029 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:37.030 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.030 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.030 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.030 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -7152,22 +7220,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.939 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.939 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.940 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.940 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.940 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.940 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.940 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.028 s: api query_variant_calls with protobuf -21: 00:40:39.947 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.947 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.947 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.948 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.948 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.948 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.948 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.111 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.111 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.112 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:37.129 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.129 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.130 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.130 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.076 s: Try query with POS and ROW with no match +21: 0.329 s: api query_variant_calls with protobuf +21: 20:49:37.188 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.188 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.188 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:37.197 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.197 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.198 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.198 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -7196,13 +7264,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.957 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.957 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.958 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.958 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.958 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.958 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.958 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.271 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.271 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.272 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:37.293 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.293 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.294 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.294 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -7231,26 +7299,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.967 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.967 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.968 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.968 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.968 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.968 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.968 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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 -21: 0.028 s: api query_variant_calls with protobuf -21: 00:40:39.975 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.975 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.975 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.976 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.976 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.976 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.976 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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 -9: =============================================================================== -9: All tests passed (10488234 assertions in 9 test cases) -9: -11/22 Test #9: test_tiledb_utils ................ Passed 0.53 sec +21: 20:49:37.448 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.448 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.465 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:37.466 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.466 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.466 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.466 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.113 s: Try query with POS and ROW +21: 0.373 s: api query_variant_calls with protobuf +21: 20:49:37.561 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.561 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.561 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:37.562 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.562 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.563 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.563 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -7279,13 +7343,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.985 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.985 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.985 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.986 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.986 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.986 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.986 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.676 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.692 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.693 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:37.694 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.694 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.695 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.695 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -7314,22 +7378,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:39.995 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.995 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.995 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:39.996 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.996 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:39.996 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:39.996 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.003 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.003 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.003 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:40.003 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.003 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.004 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.004 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.787 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.787 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.787 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:37.801 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.801 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.801 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.801 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.073 s: Try query with ISHOMREF +21: 0.299 s: api query_variant_calls with protobuf +21: 20:49:37.860 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.860 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.881 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:37.882 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.882 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:37.882 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:37.882 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -7358,13 +7422,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:40.013 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.013 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.013 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:40.013 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.013 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.014 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.014 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.049 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.049 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.049 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:38.050 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.050 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.051 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.051 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -7393,22 +7457,30 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:40.023 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.023 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.023 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:40.023 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.023 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.024 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.024 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.030 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.030 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.031 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:40.031 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.031 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.031 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.031 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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 8: Running ./tiledb_ls... +21: 20:49:38.247 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.247 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.247 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:38.261 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.261 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.261 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.261 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=&& errno=2(No such file or directory) +19: Example 8: Done running ./tiledb_ls +21: 0.065 s: Try query with ISHOMREF +21: 0.452 s: api query_variant_calls with protobuf +21: 20:49:38.312 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.312 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +9: =============================================================================== +9: All tests passed (10488234 assertions in 9 test cases) +9: +15/22 Test #9: test_tiledb_utils ................ Passed 6.39 sec +21: 20:49:38.322 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:38.323 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.323 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.324 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.324 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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 9: Running ./tiledb_array_read_dense_1... 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7437,13 +7509,33 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:40.040 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.040 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.041 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:40.041 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.041 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.041 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.041 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: a1 a2 (a3.first, a3.second) +19: ----------------------------------------- +19: 0 a ( 0.1, 0.2) +19: 1 bb ( 1.1, 1.2) +19: 2 ccc ( 2.1, 2.2) +19: 3 dddd ( 3.1, 3.2) +19: 4 e ( 4.1, 4.2) +19: 5 ff ( 5.1, 5.2) +19: 6 ggg ( 6.1, 6.2) +19: 7 hhhh ( 7.1, 7.2) +19: 8 i ( 8.1, 8.2) +19: 9 jj ( 9.1, 9.2) +19: 10 kkk ( 10.1, 10.2) +19: 11 llll ( 11.1, 11.2) +19: 12 m ( 12.1, 12.2) +19: 13 nn ( 13.1, 13.2) +19: 14 ooo ( 14.1, 14.2) +19: 15 pppp ( 15.1, 15.2) +19: Example 9: Done running ./tiledb_array_read_dense_1 +21: 20:49:38.409 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.409 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.409 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:38.410 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.410 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.411 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.411 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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 10: Running ./tiledb_array_write_dense_2... 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7472,22 +7564,23 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:40.051 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.051 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.051 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:40.051 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.051 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.052 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.052 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.058 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.058 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.059 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:40.059 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.059 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.059 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.059 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.486 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.486 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.487 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:38.488 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.488 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +19: Example 10: Done running ./tiledb_array_write_dense_2 +21: 20:49:38.513 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.513 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.090 s: Try query with ISHOMREF +21: 0.264 s: api query_variant_calls with protobuf +21: 20:49:38.595 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.595 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.596 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:38.597 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.597 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.597 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.597 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -7516,13 +7609,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:40.068 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.068 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.069 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:40.069 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.069 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.069 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.069 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.717 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.717 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.717 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:38.718 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.718 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.718 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.718 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: @@ -7551,36 +7644,36 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 00:40:40.078 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.078 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.079 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:40.079 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.079 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:40.079 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:40.079 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.006 s: Base configuration -21: 0.007 s: api query_variant_calls with protobuf and config -21: 00:40:40.093 ERROR NativeGenomicsDB - pid=544933 tid=544933 Could not parse query_configuration. Only protobuf QueryConfiguration binary strings accepted as input argument +21: 20:49:38.865 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.865 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.865 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:38.866 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.866 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:38.866 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:38.866 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.089 s: Try query with ISHOMREF +21: 0.365 s: api query_variant_calls with protobuf +21: 0.048 s: Base configuration +21: 0.050 s: api query_variant_calls with protobuf and config +21: 20:49:39.001 ERROR NativeGenomicsDB - pid=3812510 tid=3812510 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: 0.005 s: Subset Array using QueryConfiguration -21: 0.006 s: api query_variant_calls with protobuf and config -21: 0.005 s: Subset Array using ExportConfiguration -21: 0.006 s: api query_variant_calls with protobuf and config -21: 0.006 s: Subset Array using QueryConfiguration - two intervals -21: 0.006 s: api query_variant_calls with protobuf and config -21: 0.007 s: Subset Array using QueryConfiguration - multiple queries -21: 0.008 s: api query_variant_calls with protobuf and config -21: 0.007 s: Test filter test for 0 -21: 0.007 s: api query_variant_calls with protobuf new -21: 0.007 s: Test filter test for 1 -21: 0.007 s: api query_variant_calls with protobuf new -21: 0.007 s: Test filter test for 2 -21: 0.007 s: api query_variant_calls with protobuf new -21: 0.007 s: Test filter test for 3 -21: 0.007 s: api query_variant_calls with protobuf new +21: 0.010 s: api query_variant_calls with protobuf and config +21: 0.053 s: Subset Array using QueryConfiguration +21: 0.063 s: api query_variant_calls with protobuf and config +21: 0.049 s: Subset Array using ExportConfiguration +21: 0.051 s: api query_variant_calls with protobuf and config +21: 0.046 s: Subset Array using QueryConfiguration - two intervals +21: 0.057 s: api query_variant_calls with protobuf and config +21: 0.079 s: Subset Array using QueryConfiguration - multiple queries +21: 0.093 s: api query_variant_calls with protobuf and config +21: 0.038 s: Test filter test for 0 +21: 0.038 s: api query_variant_calls with protobuf new +21: 0.042 s: Test filter test for 1 +21: 0.042 s: api query_variant_calls with protobuf new +21: 0.038 s: Test filter test for 2 +21: 0.043 s: api query_variant_calls with protobuf new +21: 0.078 s: Test filter test for 3 +21: 0.087 s: api query_variant_calls with protobuf new 21: 273 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"DP":[null,null],"GT":["C/C","G/A"],"REF":["C","G"]},"HG01530":{"CHR":["1"],"POS":[17385],"DP":[76],"GT":["G/A"],"REF":["G"]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"DP":[null,120],"GT":["C/C","T/T"],"REF":["C","G"]}} 21: 21: 207 {"FIELD":["CHR","POS","DP","GT","REF"],"HG00141":[["1",12141,null,"C/C","C"],["1",17385,null,"G/A","G"]],"HG01530":[["1",17385,76,"G/A","G"]],"HG01958":[["1",12145,null,"C/C","C"],["1",17385,120,"T/T","G"]]} @@ -7595,162 +7688,101 @@ 21: 21: 1805 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"AD":[null,58],"BaseQRankSum":[null,-2.0959999561309816],"ClippingRankSum":[null,-1.8589999675750733],"DP":[null,null],"DP_FORMAT":[2,80],"DS":["1","1"],"FILTER":[null,0],"GQ":[0,99],"GT":["C/C","G/A"],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MIN_DP":[0,null],"MLEAC":[null,1],"MLEAF":[null,0.5],"MQ":[null,31.719999313354493],"MQ0":[null,8],"MQRankSum":[null,-0.32899999618530276],"PGT":[null,"0|1"],"PID":[null,"17385_G_A"],"PL":[0,504],"QUAL":[null,475.7699890136719],"RAW_MQ":[null,5.5],"REF":["C","G"],"ReadPosRankSum":[null,0.004999999888241291],"SB":[null,"[58, 0, 22, 0]"]},"HG01530":{"CHR":["1"],"POS":[17385],"AD":[40],"BaseQRankSum":[1.0460000038146973],"ClippingRankSum":[-2.242000102996826],"DP":[76],"DP_FORMAT":[76],"DS":[null],"FILTER":[null],"GQ":[99],"GT":["G/A"],"HaplotypeScore":[null],"InbreedingCoeff":[null],"MIN_DP":[null],"MLEAC":[1],"MLEAF":[0.5],"MQ":[59.369998931884769],"MQ0":[0],"MQRankSum":[-0.4320000112056732],"PGT":[null],"PID":[null],"PL":[1018],"QUAL":[989.77001953125],"RAW_MQ":[null],"REF":["G"],"ReadPosRankSum":[2.055000066757202],"SB":["[9, 31, 13, 23]"]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"AD":[null,0],"BaseQRankSum":[null,-2.0739998817443849],"ClippingRankSum":[null,0.5550000071525574],"DP":[null,120],"DP_FORMAT":[3,120],"DS":["1",null],"FILTER":[null,0],"GQ":[0,99],"GT":["C/C","T/T"],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MIN_DP":[0,null],"MLEAC":[null,2],"MLEAF":[null,1.0],"MQ":[null,29.81999969482422],"MQ0":[null,3],"MQRankSum":[null,-1.36899995803833],"PGT":[null,"0|1"],"PID":[null,"17385_G_T"],"PL":[0,3336],"QUAL":[null,3302.77001953125],"RAW_MQ":[null,2.5],"REF":["C","G"],"ReadPosRankSum":[null,-0.10100000351667404],"SB":[null,"[0, 0, 0, 0]"]}} 21: -21: 0.036 s: api query_variant_calls with JSONVariantCallProcessor +21: 0.491 s: api query_variant_calls with JSONVariantCallProcessor 21: 0.000 s: Test genomicsdb demo test case -14: Sun Mar 29 00:40:40 2026 Memory stats Tracking memory usage END size=6MB resident=3MB share=3MB text=496KB lib=0 data=536KB dt=0 -14: =============================================================================== -14: test cases: 1 | 1 passed -14: assertions: - none - -14: -12/22 Test #14: test_mem_utils ................... Passed 1.00 sec -18: =============================================================================== -18: All tests passed (450703 assertions in 3 test cases) -18: -13/22 Test #18: test_storage_buffer .............. Passed 1.12 sec -16: =============================================================================== -16: All tests passed (86 assertions in 6 test cases) -16: -14/22 Test #16: test_utils ....................... Passed 1.56 sec -21: 0.849 s: api generate_vcf direct -21: 00:40:41.033 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.033 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.033 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.010 s: api generate_vcf with json -21: 00:40:41.043 DEBUG NativeGenomicsDB - pid=544933 tid=545003 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.043 WARN NativeGenomicsDB - pid=544933 tid=545003 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.043 DEBUG NativeGenomicsDB - pid=544933 tid=545002 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.043 WARN NativeGenomicsDB - pid=544933 tid=545002 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.043 DEBUG NativeGenomicsDB - pid=544933 tid=545004 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.043 WARN NativeGenomicsDB - pid=544933 tid=545004 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.043 DEBUG NativeGenomicsDB - pid=544933 tid=545005 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.043 WARN NativeGenomicsDB - pid=544933 tid=545005 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.043 DEBUG NativeGenomicsDB - pid=544933 tid=545006 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.043 WARN NativeGenomicsDB - pid=544933 tid=545006 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.043 DEBUG NativeGenomicsDB - pid=544933 tid=545003 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:41.043 DEBUG NativeGenomicsDB - pid=544933 tid=545002 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:41.043 DEBUG NativeGenomicsDB - pid=544933 tid=545004 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:41.043 DEBUG NativeGenomicsDB - pid=544933 tid=545008 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.043 WARN NativeGenomicsDB - pid=544933 tid=545008 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.043 DEBUG NativeGenomicsDB - pid=544933 tid=545007 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.043 WARN NativeGenomicsDB - pid=544933 tid=545007 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.043 DEBUG NativeGenomicsDB - pid=544933 tid=545009 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.043 WARN NativeGenomicsDB - pid=544933 tid=545009 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.043 DEBUG NativeGenomicsDB - pid=544933 tid=545005 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:41.044 DEBUG NativeGenomicsDB - pid=544933 tid=545006 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:41.044 DEBUG NativeGenomicsDB - pid=544933 tid=545008 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:41.044 DEBUG NativeGenomicsDB - pid=544933 tid=545007 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:41.044 DEBUG NativeGenomicsDB - pid=544933 tid=545009 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.020 s: api generate_vcf with json multiple threads -21: 00:40:41.063 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.063 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.063 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:41.064 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.064 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.064 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.064 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.071 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.071 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.072 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:41.072 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.072 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.072 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.072 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.080 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.080 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.080 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 00:40:41.080 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.080 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 00:40:41.081 DEBUG NativeGenomicsDB - pid=544933 tid=544933 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:41.081 WARN NativeGenomicsDB - pid=544933 tid=544933 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.490 s: api generate_vcf direct +21: 20:49:40.458 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:40.458 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:40.459 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.077 s: api generate_vcf with json +21: 20:49:40.537 DEBUG NativeGenomicsDB - pid=3812510 tid=3813059 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:40.537 WARN NativeGenomicsDB - pid=3812510 tid=3813059 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:40.538 DEBUG NativeGenomicsDB - pid=3812510 tid=3813059 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:40.553 DEBUG NativeGenomicsDB - pid=3812510 tid=3813061 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:40.553 WARN NativeGenomicsDB - pid=3812510 tid=3813061 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:40.554 DEBUG NativeGenomicsDB - pid=3812510 tid=3813061 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:40.581 DEBUG NativeGenomicsDB - pid=3812510 tid=3813062 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:40.581 WARN NativeGenomicsDB - pid=3812510 tid=3813062 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:40.582 DEBUG NativeGenomicsDB - pid=3812510 tid=3813062 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:40.597 DEBUG NativeGenomicsDB - pid=3812510 tid=3813064 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:40.597 WARN NativeGenomicsDB - pid=3812510 tid=3813064 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:40.598 DEBUG NativeGenomicsDB - pid=3812510 tid=3813064 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:40.601 DEBUG NativeGenomicsDB - pid=3812510 tid=3813063 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:40.601 WARN NativeGenomicsDB - pid=3812510 tid=3813063 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:40.602 DEBUG NativeGenomicsDB - pid=3812510 tid=3813063 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:40.613 DEBUG NativeGenomicsDB - pid=3812510 tid=3813066 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:40.613 WARN NativeGenomicsDB - pid=3812510 tid=3813066 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:40.614 DEBUG NativeGenomicsDB - pid=3812510 tid=3813066 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:40.661 DEBUG NativeGenomicsDB - pid=3812510 tid=3813065 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:40.661 WARN NativeGenomicsDB - pid=3812510 tid=3813065 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:40.661 DEBUG NativeGenomicsDB - pid=3812510 tid=3813065 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:40.885 DEBUG NativeGenomicsDB - pid=3812510 tid=3813060 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:40.885 WARN NativeGenomicsDB - pid=3812510 tid=3813060 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:40.925 DEBUG NativeGenomicsDB - pid=3812510 tid=3813060 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.502 s: api generate_vcf with json multiple threads +21: 20:49:41.037 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:41.037 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:41.038 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:41.038 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:41.038 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:41.039 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:41.039 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:41.129 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:41.129 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:41.129 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:41.130 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:41.130 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:41.131 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:41.131 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:41.199 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:41.199 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:41.200 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 20:49:41.213 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:41.213 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 20:49:41.214 DEBUG NativeGenomicsDB - pid=3812510 tid=3812510 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:41.214 WARN NativeGenomicsDB - pid=3812510 tid=3812510 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/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: 0.019 s: api annotate query_variant_calls with test datasource 0 +21: 0.178 s: api annotate query_variant_calls with test datasource 0 21: =============================================================================== 21: All tests passed (1531 assertions in 26 test cases) 21: -15/22 Test #21: api_tests ........................ Passed 1.62 sec -17: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/tmp/TileDBTest1WB7XK/test_posixfs_dirfile/foo1 errno=2(No such file or directory) -17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestNWEab3/test_posixfs_dirread_write/foo -17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestNWEab3/test_posixfs_dirread_write/foo -17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestNWEab3/test_posixfs_dirread_write/foo -20: 00:40:42.346 INFO NativeGenomicsDB - pid=544931 tid=544931 Plink progress 3452039 / 6904084 = 50.00% -20: 00:40:42.346 ERROR NativeGenomicsDB - pid=544931 tid=544931 PL field for sample: HG00141 row: 0 column: 12277 contains a negative value or otherwise did not parse, full string: [-2147483648, -2147483648, -2147483648] -20: 00:40:42.346 ERROR NativeGenomicsDB - pid=544931 tid=544931 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: 00:40:42.346 ERROR NativeGenomicsDB - pid=544931 tid=544931 PL field for sample: HG00141 row: 0 column: 12299 contains a negative value or otherwise did not parse, full string: [-2147483648, -2147483648, -2147483648] -20: 00:40:42.346 ERROR NativeGenomicsDB - pid=544931 tid=544931 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: 00:40:42.346 ERROR NativeGenomicsDB - pid=544931 tid=544931 PL field for sample: HG01958 row: 1 column: 12299 contains a negative value or otherwise did not parse, full string: [-2147483648, -2147483648, -2147483648] -20: 00:40:42.346 ERROR NativeGenomicsDB - pid=544931 tid=544931 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: 00:40:42.346 ERROR NativeGenomicsDB - pid=544931 tid=544931 PL field for sample: HG00141 row: 0 column: 12399 contains a negative value or otherwise did not parse, full string: [-2147483648, -2147483648, -2147483648] -20: 00:40:42.346 ERROR NativeGenomicsDB - pid=544931 tid=544931 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: 00:40:42.346 ERROR NativeGenomicsDB - pid=544931 tid=544931 PL field for sample: HG01958 row: 1 column: 12399 contains a negative value or otherwise did not parse, full string: [0, 1, -2147483648] -20: 00:40:42.346 ERROR NativeGenomicsDB - pid=544931 tid=544931 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: 00:40:42.346 ERROR NativeGenomicsDB - pid=544931 tid=544931 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: 00:40:42.346 ERROR NativeGenomicsDB - pid=544931 tid=544931 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: 00:40:42.346 WARN NativeGenomicsDB - pid=544931 tid=544931 GL probabilities at sample: HG01958 row: 1 column: 12499 sum to 0.8981071705534972, expected near 1. Generated BGEN may be invalid -20: 2.862 s: test bgen -20: 00:40:42.890 ERROR NativeGenomicsDB - pid=544931 tid=544931 VariantStorageManagerException exception : Could not open workspace -20: 00:40:42.891 ERROR NativeGenomicsDB - pid=544931 tid=544931 Could not open array non_existent_array in workspace /tmp/GenomicsDBPE0PX1/ws -20: 00:40:42.891 ERROR NativeGenomicsDB - pid=544931 tid=544931 VariantQueryProcessorException : Could not open array non_existent_array at workspace /tmp/GenomicsDBPE0PX1/ws -20: 0.271 s: constructor -20: 00:40:42.891 DEBUG NativeGenomicsDB - pid=544931 tid=544931 json file /build/reproducible-path/genomicsdb-1.5.4/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: 00:40:42.891 WARN NativeGenomicsDB - pid=544931 tid=544931 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 00:40:42.892 DEBUG NativeGenomicsDB - pid=544931 tid=544931 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -20: 00:40:42.898 ERROR NativeGenomicsDB - pid=544931 tid=544931 Invalid query attribute : non_existent_attribute -20: 0.007 s: test basic queries -20: 00:40:42.898 INFO NativeGenomicsDB - pid=544931 tid=544931 Mem usage Check basic memory usage rss=48M +20: 20:49:41.269 INFO NativeGenomicsDB - pid=3812480 tid=3812480 Plink progress 3452039 / 6904084 = 50.00% +20: 20:49:41.269 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 PL field for sample: HG00141 row: 0 column: 12277 contains a negative value or otherwise did not parse, full string: [-2147483648, -2147483648, -2147483648] +20: 20:49:41.270 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 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: 20:49:41.270 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 PL field for sample: HG00141 row: 0 column: 12299 contains a negative value or otherwise did not parse, full string: [-2147483648, -2147483648, -2147483648] +20: 20:49:41.270 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 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: 20:49:41.270 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 PL field for sample: HG01958 row: 1 column: 12299 contains a negative value or otherwise did not parse, full string: [-2147483648, -2147483648, -2147483648] +20: 20:49:41.270 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 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: 20:49:41.270 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 PL field for sample: HG00141 row: 0 column: 12399 contains a negative value or otherwise did not parse, full string: [-2147483648, -2147483648, -2147483648] +20: 20:49:41.270 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 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: 20:49:41.270 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 PL field for sample: HG01958 row: 1 column: 12399 contains a negative value or otherwise did not parse, full string: [0, 1, -2147483648] +20: 20:49:41.270 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 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: 20:49:41.270 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 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: 20:49:41.270 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 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: 20:49:41.270 WARN NativeGenomicsDB - pid=3812480 tid=3812480 GL probabilities at sample: HG01958 row: 1 column: 12499 sum to 0.8981071705534972, expected near 1. Generated BGEN may be invalid +16/22 Test #21: api_tests ........................ Passed 9.05 sec +20: 8.280 s: test bgen +20: 20:49:41.385 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 VariantStorageManagerException exception : Could not open workspace +20: 20:49:41.385 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 Could not open array non_existent_array in workspace /tmp/GenomicsDBB7PeSU/ws +20: 20:49:41.385 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 VariantQueryProcessorException : Could not open array non_existent_array at workspace /tmp/GenomicsDBB7PeSU/ws +20: 0.024 s: constructor +20: 20:49:41.386 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file /build/reproducible-path/genomicsdb-1.5.4/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: 20:49:41.386 WARN NativeGenomicsDB - pid=3812480 tid=3812480 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 20:49:41.386 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +20: 20:49:41.446 ERROR NativeGenomicsDB - pid=3812480 tid=3812480 Invalid query attribute : non_existent_attribute +20: 0.061 s: test basic queries +20: 20:49:41.447 INFO NativeGenomicsDB - pid=3812480 tid=3812480 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: 00:40:42.898 DEBUG NativeGenomicsDB - pid=544931 tid=544931 Deleting htslib_fs_adapter tiledb_ctx_map -16/22 Test #20: ctests ........................... Passed 3.44 sec -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) -17: [TileDB::FileSystem] Error: (read_from_file) Cannot open simultaneously for reads/writes path=test_posixfs_dir_locking/foo -19: Example 6: Done running ./tiledb_array_write_dense_1 -19: Example 7: Running ./tiledb_array_write_sparse_1... -17: [TileDB::FileSystem] Error: (~PosixFS) File does not seem to be closed path=test_dir_locking1/foo_sync -17: [TileDB::FileSystem] Error: (~PosixFS) File does not seem to be closed path=test_dir_locking1/foo_no_close -17: =============================================================================== -17: All tests passed (258 assertions in 11 test cases) -17: -17/22 Test #17: test_posixfs ..................... Passed 9.24 sec -19: Example 7: Done running ./tiledb_array_write_sparse_1 -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 -19: Example 9: Running ./tiledb_array_read_dense_1... -19: a1 a2 (a3.first, a3.second) -19: ----------------------------------------- -19: 0 a ( 0.1, 0.2) -19: 1 bb ( 1.1, 1.2) -19: 2 ccc ( 2.1, 2.2) -19: 3 dddd ( 3.1, 3.2) -19: 4 e ( 4.1, 4.2) -19: 5 ff ( 5.1, 5.2) -19: 6 ggg ( 6.1, 6.2) -19: 7 hhhh ( 7.1, 7.2) -19: 8 i ( 8.1, 8.2) -19: 9 jj ( 9.1, 9.2) -19: 10 kkk ( 10.1, 10.2) -19: 11 llll ( 11.1, 11.2) -19: 12 m ( 12.1, 12.2) -19: 13 nn ( 13.1, 13.2) -19: 14 ooo ( 14.1, 14.2) -19: 15 pppp ( 15.1, 15.2) -19: Example 9: Done running ./tiledb_array_read_dense_1 -19: Example 10: Running ./tiledb_array_write_dense_2... -5: Randomness seeded to: 3963784306 -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 17.06 sec -19: Example 10: Done running ./tiledb_array_write_dense_2 +20: 20:49:41.447 DEBUG NativeGenomicsDB - pid=3812480 tid=3812480 Deleting htslib_fs_adapter tiledb_ctx_map +17/22 Test #20: ctests ........................... Passed 9.30 sec 19: Example 11: Running ./tiledb_array_read_dense_1... 19: a1 a2 (a3.first, a3.second) 19: ----------------------------------------- @@ -7784,8 +7816,11 @@ 19: 15 19: Example 12: Done running ./tiledb_array_read_dense_2 19: Example 13: Running ./tiledb_array_write_dense_sorted... -7: Randomness seeded to: 2847841612 19: Example 13: Done running ./tiledb_array_write_dense_sorted +18: =============================================================================== +18: All tests passed (450703 assertions in 3 test cases) +18: +18/22 Test #18: test_storage_buffer .............. Passed 11.87 sec 19: Example 14: Running ./tiledb_array_read_dense_1... 19: a1 a2 (a3.first, a3.second) 19: ----------------------------------------- @@ -7808,10 +7843,8 @@ 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 -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 (109382136 assertions in 4 test cases) -7: -19/22 Test #7: test_dense_array_api ............. Passed 31.81 sec +8: Randomness seeded to: 3665382057 +7: Randomness seeded to: 189200814 19: Example 16: Running ./tiledb_array_read_dense_1... 19: a1 a2 (a3.first, a3.second) 19: ----------------------------------------- @@ -7831,14 +7864,9 @@ 19: 113 NN (113.1, 113.2) 19: 114 OOO (114.1, 114.2) 19: 115 PPPP (115.1, 115.2) -8: Randomness seeded to: 137859417 19: Example 16: Done running ./tiledb_array_read_dense_1 19: Example 17: Running ./tiledb_array_update_dense_2... 19: Example 17: Done running ./tiledb_array_update_dense_2 -8: 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] =============================================================================== -8: All tests passed (15566457 assertions in 15 test cases) -8: -20/22 Test #8: test_sparse_array_api ............ Passed 40.97 sec 19: Example 18: Running ./tiledb_array_read_dense_1... 19: a1 a2 (a3.first, a3.second) 19: ----------------------------------------- @@ -7861,8 +7889,10 @@ 19: Example 18: Done running ./tiledb_array_read_dense_1 19: Example 19: Running ./tiledb_array_write_sparse_1... 19: Example 19: Done running ./tiledb_array_write_sparse_1 -22: Build with DISABLE_MPI option set, not running gt_mpi_gather tests -21/22 Test #22: tools_tests ...................... Passed 49.16 sec +8: 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] =============================================================================== +8: All tests passed (13796189 assertions in 15 test cases) +8: +19/22 Test #8: test_sparse_array_api ............ Passed 32.41 sec 19: Example 20: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- @@ -7985,6 +8015,8 @@ 19: 107 19: Example 35: Done running ./tiledb_array_iterator_sparse_filter 19: Example 36: Running ./tiledb_array_read_sparse_2... +22: Build with DISABLE_MPI option set, not running gt_mpi_gather tests +20/22 Test #22: tools_tests ...................... Passed 47.05 sec 19: a1 19: ---- 19: Reading cells... @@ -7996,6 +8028,10 @@ 19: Example 36: Done running ./tiledb_array_read_sparse_2 19: Example 37: Running ./tiledb_array_consolidate... 19: Example 37: Done running ./tiledb_array_consolidate +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 (136314147 assertions in 4 test cases) +7: +21/22 Test #7: test_dense_array_api ............. Passed 50.68 sec 19: Example 38: Running ./tiledb_array_read_dense_1... 19: a1 a2 (a3.first, a3.second) 19: ----------------------------------------- @@ -8061,25 +8097,31 @@ 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 70.70 sec +22/22 Test #19: ci_tests ......................... Passed 58.29 sec 100% tests passed, 0 tests failed out of 22 -Total Test time (real) = 70.73 sec +Total Test time (real) = 58.76 sec make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4' debian/rules override_dh_auto_test-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4' dh_auto_build - cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j20 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.4 -B/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/depend +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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". @@ -8087,7 +8129,12 @@ Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". +make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". @@ -8121,51 +8168,39 @@ Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target genomicsdb-hts -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build 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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". -make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/build Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". +[ 0%] Built target protobuf_ep Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 1%] 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 Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". -[ 13%] Built target genomicsdb-hts Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target genomicsdb-hts Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". -make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/depend Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/resources /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". @@ -8174,28 +8209,23 @@ Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". +[ 13%] Built target genomicsdb-hts Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' [ 13%] 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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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/__/resources/genomicsdb_callsets_mapping.pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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/__/resources/genomicsdb_coordinates.pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". @@ -8216,17 +8246,10 @@ 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-1.5.4/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-1.5.4/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/query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -[ 25%] Built target TILEDB_CORE_OBJECTS 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-1.5.4/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_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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 -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_cell.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/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_field_handler.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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/loader/genomicsdb_importer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". @@ -8246,1103 +8269,1116 @@ 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-1.5.4/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/memory_measure.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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/timer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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/vid_mapper.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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/utils/vid_mapper_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_shared 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-1.5.4/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/genomicsdb_bcf_generator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/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/vcf_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target TILEDB_CORE_OBJECTS +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target GenomicsDB_library_object_files +[ 25%] Built target TILEDB_CORE_OBJECTS +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" +[ 40%] Built target GenomicsDB_library_object_files +make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_shared make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build -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-1.5.4/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/vcf_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 26%] Built target tiledb_shared -[ 26%] 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 -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 +[ 41%] Built target tiledb_shared +make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/depend +[ 41%] Built target genomicsdb make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_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 -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" +make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" -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-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" +make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/depend +[ 41%] Built target tiledb_static make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" +make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/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 +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" +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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" -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_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" +make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Dependencies file "src/main/CMakeFiles/tiledbgenomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledbgenomicsdb +Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu 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"/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" -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 'src/main/CMakeFiles/tiledbgenomicsdb.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend +Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". +Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". +Dependencies file "tools/CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/compiler_depend.internal". +Dependencies file "tools/CMakeFiles/vcf2genomicsdb_init.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target api_tests +Consolidate compiler generated dependencies of target test_genomicsdb_demo +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.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 +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" +make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/build +make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build +[ 41%] Built target tiledbgenomicsdb make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" +make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/depend +Consolidate compiler generated dependencies of target vcf2genomicsdb_init +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target create_genomicsdb_workspace make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/depend +make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/api_tests.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" +make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/build +Dependencies file "tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/compiler_depend.internal". +Dependencies file "tools/CMakeFiles/vcfdiff.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/compiler_depend.internal". +make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/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 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend +make[4]: Nothing to be done for 'tools/CMakeFiles/create_genomicsdb_workspace.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Dependencies file "tools/CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/compiler_depend.internal". +Dependencies file "tools/CMakeFiles/gt_mpi_gather.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target vcfdiff +Consolidate compiler generated dependencies of target consolidate_genomicsdb_array +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/DependInfo.cmake "--color=" +make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb_init.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Dependencies file "tools/CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/compiler_depend.internal". +Dependencies file "tools/CMakeFiles/vcf2genomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" -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]: Nothing to be done for 'src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/build +Consolidate compiler generated dependencies of target gt_mpi_gather +Consolidate compiler generated dependencies of target vcf2genomicsdb +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.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[4]: Nothing to be done for 'tools/CMakeFiles/consolidate_genomicsdb_array.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/build +make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake "--color=" -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]: Nothing to be done for 'tools/CMakeFiles/vcfdiff.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target ctests make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" -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]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 42%] Built target api_tests +make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" +make[4]: Nothing to be done for 'tools/CMakeFiles/gt_mpi_gather.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Dependencies file "tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/compiler_depend.internal". +Dependencies file "tools/CMakeFiles/vcf_histogram.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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/depend -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_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]: Nothing to be done for 'src/test/cpp/CMakeFiles/ctests.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 42%] Built target create_genomicsdb_workspace +[ 42%] Built target vcf2genomicsdb_init +Consolidate compiler generated dependencies of target vcf_histogram +[ 42%] Built target test_genomicsdb_demo +make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend +[ 43%] Built target consolidate_genomicsdb_array +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" -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 +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/example /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" +[ 44%] Built target vcfdiff +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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" -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-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/example /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/DependInfo.cmake "--color=" +make[4]: Nothing to be done for 'tools/CMakeFiles/vcf_histogram.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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/depend +[ 45%] Built target gt_mpi_gather +[ 46%] Built target vcf2genomicsdb make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/depend +[ 51%] Built target ctests +Dependencies file "example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/compiler_depend.internal". +Dependencies file "example/CMakeFiles/test_genomicsdb_importer.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/depend +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". +Dependencies file "example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/compiler_depend.internal". +Dependencies file "example/CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/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 +Consolidate compiler generated dependencies of target test_genomicsdb_importer +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.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 -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 +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.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 -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/DependInfo.cmake "--color=" +make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_importer.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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/depend -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" -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 -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 -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/compiler_depend.internal". +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" 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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". -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-1.5.4/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/src/c_api/test_tiledb_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/compiler_depend.internal". -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". +[ 52%] Built target vcf_histogram +make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend +Consolidate compiler generated dependencies of target test_print_array_schema +Consolidate compiler generated dependencies of target test_genomicsdb_bcf_generator +Consolidate compiler generated dependencies of target test_array_schema +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.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-1.5.4/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_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". -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 example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target test_sparse_array_benchmark +[ 53%] Built target test_genomicsdb_importer +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.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 +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_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-1.5.4/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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build'. Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" -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 -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/depend +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-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_dense_array_api +Consolidate compiler generated dependencies of target test_array_schema_api +Consolidate compiler generated dependencies of target test_print_book_keeping +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 +[ 54%] Built target test_genomicsdb_bcf_generator +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". +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-1.5.4/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 54%] Built target test_array_schema +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 55%] Built target test_print_array_schema +make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend +[ 56%] Built target test_sparse_array_benchmark +Consolidate compiler generated dependencies of target test_array_iterator +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend +[ 56%] Built target test_print_book_keeping +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" +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_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/depend +[ 57%] Built target test_dense_array_api +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 58%] Built target test_array_schema_api +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" 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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". +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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_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 +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" +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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" +[ 59%] Built target test_array_iterator +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/depend +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_sparse_array_api +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/depend +Consolidate compiler generated dependencies of target test_tiledb_utils +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". -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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/DependInfo.cmake "--color=" +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_filter_api.dir/src/expressions/test_filter_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". +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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' 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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.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/build Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/compiler_depend.internal". -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_print_book_keeping -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.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 -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_mem_utils -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_dense_array_api -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_array_schema_api +make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/depend +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/compiler_depend.internal". +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_codec_filter -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_array_schema -Consolidate compiler generated dependencies of target test_codec -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_array_iterator -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_sparse_array_api Consolidate compiler generated dependencies of target test_expressions -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_sparse_array_benchmark -Consolidate compiler generated dependencies of target tiledb_array_create_dense -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_tiledb_utils Consolidate compiler generated dependencies of target test_filter_api Consolidate compiler generated dependencies of target test_uri -Consolidate compiler generated dependencies of target tiledb_array_aio_write_dense -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_aio_read_dense -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_3d -Consolidate compiler generated dependencies of target tiledb_array_consolidate -make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_codec make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_utils -make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_create_sparse -make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_print_array_schema make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 60%] Built target test_tiledb_utils +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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build -Consolidate compiler generated dependencies of target test_storage_buffer -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_iterator_dense -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.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_posixfs make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_dense -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/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 +[ 61%] Built target test_sparse_array_api make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build -Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse_filter -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-1.5.4/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_sparse -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build'. make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build'. -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". -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_parallel_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". +[ 61%] Built target test_codec_filter +[ 61%] Built target test_expressions +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/depend +[ 61%] Built target test_uri +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 +Consolidate compiler generated dependencies of target test_mem_utils +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_posixfs +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" +[ 62%] Built target test_codec +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" +[ 63%] Built target test_filter_api +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/depend +Consolidate compiler generated dependencies of target test_storage_buffer make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_1 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build'. +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_2 -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_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build +[ 64%] Built target test_utils make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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_posixfs.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build'. +Consolidate compiler generated dependencies of target tiledb_array_consolidate make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". 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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.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/depend +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 65%] Built target test_posixfs +[ 65%] Built target test_storage_buffer +[ 65%] Built target test_mem_utils make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build'. +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" +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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build'. +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/DependInfo.cmake "--color=" +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake "--color=" +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 -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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target tiledb_array_aio_read_dense +Consolidate compiler generated dependencies of target tiledb_array_aio_write_dense +Consolidate compiler generated dependencies of target tiledb_array_3d make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/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_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build -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-1.5.4/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_2.dir/src/tiledb_array_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_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_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". +[ 66%] Built target tiledb_array_consolidate +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-1.5.4/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_iterator_sparse_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/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_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". -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 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". -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-1.5.4/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_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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/examples/CMakeFiles/tiledb_array_3d.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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_sparse_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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". -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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build'. +Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse_filter +Consolidate compiler generated dependencies of target tiledb_array_create_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Dependencies file 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"/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.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-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_create_sparse +Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_dense +Consolidate compiler generated dependencies of target tiledb_array_iterator_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". +[ 67%] 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/build +Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build +[ 67%] Built target tiledb_array_aio_read_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.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-1.5.4/obj-x86_64-linux-gnu' +[ 68%] Built target tiledb_array_aio_write_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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.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-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 68%] Built target tiledb_array_create_dense +[ 69%] Built target tiledb_array_iterator_sparse_filter +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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build'. +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 +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" +[ 69%] Built target tiledb_array_iterator_dense +[ 70%] Built target tiledb_array_iterator_sparse +[ 71%] Built target tiledb_array_create_sparse +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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" +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 +[ 71%] Built target tiledb_array_parallel_consolidate_dense +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" +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-1.5.4/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/depend +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.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/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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_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_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_consolidate_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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/depend +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" +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 +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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_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-1.5.4/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_mpi_io_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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/src/tiledb_array_parallel_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.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-1.5.4/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_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_parallel_consolidate_sparse +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_2 +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_1 +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_mpi_io_dense +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_1 +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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build'. +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_2 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' 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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". +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]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' 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-1.5.4/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 -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_2 -Consolidate compiler generated dependencies of target tiledb_array_read_dense_1 +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-1.5.4/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_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_primitive -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_mpi_io_dense -Consolidate compiler generated dependencies of target tiledb_array_read_dense_2 -Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_1 -Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_1 -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_2 +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". +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 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -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 -Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_2 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_2 +Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_1 +Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_2 +Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -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 -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-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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_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-1.5.4/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]: 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-1.5.4/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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]: 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-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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_parallel_write_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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'. +[ 72%] Built target tiledb_array_parallel_consolidate_sparse +Consolidate compiler generated dependencies of target tiledb_array_primitive make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 73%] Built target tiledb_array_parallel_read_mpi_io_dense +[ 73%] Built target tiledb_array_parallel_read_dense_1 +[ 74%] Built target tiledb_array_parallel_read_dense_2 +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 74%] Built target tiledb_array_parallel_read_sparse_1 +[ 75%] Built target tiledb_array_parallel_read_sparse_2 +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 +[ 76%] Built target tiledb_array_parallel_write_dense_2 +[ 76%] Built target tiledb_array_parallel_write_dense_1 +[ 76%] Built target tiledb_array_parallel_write_sparse_2 +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 27%] Built target test_print_book_keeping -[ 27%] Built target test_dense_array_api -[ 27%] Built target test_mem_utils -[ 28%] Built target test_array_iterator -Consolidate compiler generated dependencies of target GenomicsDB_library_object_files -[ 30%] Built target test_sparse_array_benchmark -[ 30%] Built target test_sparse_array_api -[ 31%] Built target test_array_schema_api -[ 32%] Built target test_codec -[ 33%] Built target test_tiledb_utils -[ 33%] Built target test_array_schema -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 33%] Built target test_codec_filter -make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build -[ 34%] Built target test_print_array_schema -[ 34%] Built target test_expressions +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" 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 -[ 34%] Built target test_storage_buffer -[ 35%] Built target test_utils -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 -[ 37%] Built target test_filter_api -[ 37%] Built target test_uri -[ 37%] Built target test_posixfs make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/depend -[ 39%] Built target tiledb_array_parallel_read_dense_1 -[ 39%] Built target tiledb_array_iterator_dense +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-1.5.4/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_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/depend -[ 39%] Built target tiledb_array_aio_write_dense -[ 42%] Built target tiledb_array_iterator_sparse_filter -[ 39%] Built target tiledb_array_parallel_consolidate_dense -[ 39%] Built target tiledb_array_create_dense -[ 45%] Built target tiledb_array_parallel_consolidate_sparse -[ 45%] Built target tiledb_array_parallel_read_sparse_2 -[ 45%] Built target tiledb_array_iterator_sparse -[ 39%] Built target tiledb_array_aio_read_dense -[ 45%] Built target tiledb_array_create_sparse -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 -[ 45%] Built target tiledb_array_parallel_read_sparse_1 -[ 45%] Built target tiledb_array_3d -[ 45%] Built target tiledb_array_consolidate -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 -[ 46%] Built target tiledb_array_primitive -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-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". +[ 77%] Built target tiledb_array_primitive make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" -[ 46%] Built target tiledb_array_parallel_write_dense_2 -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_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/depend +Consolidate compiler generated dependencies of target tiledb_array_read_dense_3 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/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-1.5.4/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_read_dense_2 +[ 78%] Built target tiledb_array_parallel_write_sparse_1 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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/depend cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" -[ 48%] Built target tiledb_array_parallel_read_dense_2 -[ 48%] Built target tiledb_array_read_dense_1 -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" -[ 48%] Built target tiledb_array_read_dense_2 -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" -[ 49%] Built target tiledb_array_parallel_read_mpi_io_dense -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" -[ 51%] Built target tiledb_array_parallel_write_sparse_1 -[ 51%] Built target tiledb_array_parallel_write_sparse_2 -[ 51%] Built target tiledb_array_parallel_write_dense_1 -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.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 -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/depend -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-1.5.4/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_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_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_read_dense_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make 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cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" +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-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target tiledb_array_read_dense_3 +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-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/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_filter_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". +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-1.5.4/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_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/depend +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.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 +Consolidate compiler generated dependencies of target tiledb_array_read_dense_1 +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_2 Consolidate compiler generated dependencies of target tiledb_array_read_dense_sorted -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_1 +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.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 -Consolidate compiler generated dependencies of target tiledb_array_read_sparse_1 -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" +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-1.5.4/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_read_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 +[ 79%] Built target tiledb_array_read_dense_3 +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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/depend -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'src/main/CMakeFiles/GenomicsDB_library_object_files.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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_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/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". +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-1.5.4/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-1.5.4/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]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" -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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" +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-1.5.4/obj-x86_64-linux-gnu' 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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/depend -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/depend -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_update_sparse_2 -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-1.5.4/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-1.5.4/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_update_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_read_sparse_filter_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.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-1.5.4/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_sparse_filter_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_update_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_read_sparse_sorted -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" 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-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/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_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_read_sparse_sorted +[ 79%] Built target tiledb_array_read_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 80%] Built target tiledb_array_read_dense_1 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 -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-1.5.4/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_filter_2 -Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_1 -Consolidate compiler generated dependencies of target tiledb_array_update_sparse_1 -Consolidate compiler generated dependencies of target tiledb_array_read_sparse_2 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_update_dense_1 -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". +[ 81%] Built target tiledb_array_read_dense_sorted +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/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 -Consolidate compiler generated dependencies of target tiledb_array_write_dense_1 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_update_dense_2 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". +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 +[ 81%] Built target tiledb_array_read_sparse_filter_1 +[ 82%] Built target tiledb_array_read_sparse_2 +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". +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 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" +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 +[ 83%] Built target tiledb_array_read_sparse_filter_2 +[ 83%] Built target tiledb_array_read_sparse_1 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" +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 +Consolidate compiler generated dependencies of target tiledb_array_update_dense_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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 84%] Built target tiledb_array_read_sparse_sorted +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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 +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target tiledb_array_update_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/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_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.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-1.5.4/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_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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build'. +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" +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 +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-1.5.4/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-1.5.4/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_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-1.5.4/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-1.5.4/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 -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-1.5.4/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_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_update_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_update_sparse_2 +Consolidate compiler generated dependencies of target tiledb_array_update_sparse_1 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 +[ 84%] Built target tiledb_array_update_dense_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/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.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-1.5.4/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_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_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". +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-1.5.4/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_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_catching_errors.dir/src/tiledb_catching_errors.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_write_dense_sorted -Consolidate compiler generated dependencies of target tiledb_array_write_dense_2 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-1.5.4/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_catching_errors.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_write_sparse_4 -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_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_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_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.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-1.5.4/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_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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_2 +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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_write_dense_1 +Consolidate compiler generated dependencies of target tiledb_array_write_sparse_1 +Consolidate compiler generated dependencies of target tiledb_array_write_sparse_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build'. +[ 85%] Built target tiledb_array_update_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_write_dense_sorted make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build'. +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" +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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build -Consolidate compiler generated dependencies of target tiledb_clear_delete_move -Consolidate compiler generated dependencies of target tiledb_array_write_sparse_3 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 85%] Built target tiledb_array_update_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/build -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". +[ 86%] Built target tiledb_array_update_sparse_2 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 -Consolidate compiler generated dependencies of target tiledb_array_write_sparse_1 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 52%] Built target tiledb_array_read_dense_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/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.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/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/obj-x86_64-linux-gnu' +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_write_sparse_3 +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-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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 -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build'. +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-1.5.4/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.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/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_write_sparse_2 -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_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-1.5.4/obj-x86_64-linux-gnu' -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_write_sparse_3.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 87%] Built target tiledb_array_write_dense_sorted +[ 88%] Built target tiledb_array_write_dense_1 +[ 88%] Built target tiledb_array_write_dense_2 +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" +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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build'. -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/depend +[ 89%] Built target tiledb_array_write_sparse_3 +[ 89%] Built target tiledb_array_write_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/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 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" +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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.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 +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_write_sparse_4 +Consolidate compiler generated dependencies of target tiledb_clear_delete_move make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build'. +[ 90%] Built target tiledb_array_write_sparse_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 53%] Built target tiledb_array_read_dense_3 -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_metadata_primitive -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" +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 +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_delete.dir/src/tiledb_delete.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_delete -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_ls +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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.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/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build'. +Consolidate compiler generated dependencies of target tiledb_delete make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_catching_errors +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_config +Consolidate compiler generated dependencies of target tiledb_metadata_consolidate +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_ls +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/src/tiledb_ls_workspaces.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_metadata_write Consolidate compiler generated dependencies of target tiledb_ls_workspaces -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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". -[ 68%] Built target GenomicsDB_library_object_files -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -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_update.dir/src/tiledb_metadata_update.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". -[ 68%] Built target tiledb_array_read_sparse_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build -Consolidate compiler generated dependencies of target tiledb_metadata_create -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_metadata_consolidate -Consolidate compiler generated dependencies of target tiledb_metadata_iterator make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -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-1.5.4/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_create.dir/src/tiledb_metadata_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". +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-1.5.4/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/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 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build +Consolidate compiler generated dependencies of target tiledb_metadata_create make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_metadata_read +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -Consolidate compiler generated dependencies of target tiledb_workspace_group_create -[ 69%] Built target tiledb_array_read_sparse_sorted -make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 70%] Built target tiledb_array_update_sparse_2 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 -[ 71%] Built target tiledb_array_read_sparse_filter_2 -[ 72%] Built target tiledb_array_read_sparse_2 +[ 90%] Built target tiledb_array_write_sparse_4 +[ 91%] Built target tiledb_clear_delete_move +[ 92%] Built target tiledb_catching_errors +[ 93%] Built target tiledb_delete +[ 93%] Built target tiledb_config +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend +[ 94%] Built target tiledb_ls make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" +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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" -[ 72%] Built target tiledb_array_update_dense_1 +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend +[ 95%] Built target tiledb_metadata_consolidate +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-1.5.4/obj-x86_64-linux-gnu' -[ 73%] Built target tiledb_array_update_dense_2 -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 73%] Built target tiledb_array_read_sparse_filter_1 +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 73%] Built target tiledb_array_write_dense_2 -[ 73%] Built target tiledb_array_update_sparse_1 -[ 73%] Built target tiledb_config -[ 75%] Built target tiledb_array_write_dense_sorted -[ 75%] Built target tiledb_array_write_dense_1 -[ 76%] Built target tiledb_array_write_sparse_3 -[ 77%] Built target tiledb_array_write_sparse_1 -[ 79%] Built target tiledb_catching_errors -[ 79%] Built target tiledb_clear_delete_move -[ 79%] Built target tiledb_array_write_sparse_4 -[ 80%] Built target tiledb_metadata_primitive -[ 80%] Built target tiledb_array_write_sparse_2 -[ 81%] Built target tiledb_metadata_write -[ 83%] Built target tiledb_ls -[ 83%] Built target tiledb_metadata_consolidate -[ 83%] Built target tiledb_delete -[ 84%] Built target tiledb_metadata_update -Dependencies file "src/main/CMakeFiles/tiledbgenomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/compiler_depend.internal". -[ 84%] Built target tiledb_metadata_read -[ 85%] Built target tiledb_metadata_create -[ 85%] Built target tiledb_workspace_group_create -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build -[ 85%] Built target tiledb_ls_workspaces -Consolidate compiler generated dependencies of target tiledbgenomicsdb -[ 86%] Built target tiledb_metadata_iterator -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/build +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/depend +[ 95%] Built target tiledb_ls_workspaces make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.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 +[ 95%] Built target tiledb_metadata_create +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'src/main/CMakeFiles/tiledbgenomicsdb.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -[ 86%] Built target tiledbgenomicsdb -[ 86%] Built target genomicsdb +cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend -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 -make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/depend +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-1.5.4/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" -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 -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" -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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.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-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/example /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/example /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" -Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.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-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/compiler_depend.internal". -Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". -Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o.d" is newer than depends file 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"/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". +Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.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-1.5.4/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-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' +[ 96%] Built target tiledb_metadata_primitive +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build +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-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'tools/CMakeFiles/vcfdiff.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-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb_init.dir/build'. -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_bcf_generator.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-1.5.4/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_workspace_group_create make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/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 +[ 96%] Built target tiledb_metadata_read +Consolidate compiler generated dependencies of target genomicsdbjni make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/api_tests.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' +[ 97%] Built target tiledb_metadata_iterator +make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build +[ 98%] Built target tiledb_metadata_update make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[ 87%] Built target test_genomicsdb_demo -[ 87%] Built target vcf_histogram -[ 87%] Built target create_genomicsdb_workspace -[ 88%] Built target consolidate_genomicsdb_array -[ 89%] Built target vcfdiff -[ 90%] Built target vcf2genomicsdb -[ 91%] Built target vcf2genomicsdb_init -[ 91%] Built target gt_mpi_gather -[ 92%] Built target test_genomicsdb_bcf_generator -[ 93%] Built target api_tests -[ 94%] Built target genomicsdbjni -[ 95%] Built target test_genomicsdb_importer -Consolidate compiler generated dependencies of target ctests -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' -make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/obj-x86_64-linux-gnu' -[100%] Built target ctests +[ 98%] Built target tiledb_metadata_write +[ 99%] Built target tiledb_workspace_group_create +[100%] Built target genomicsdbjni make[3]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' @@ -9512,15 +9548,15 @@ 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),0.003823477,Cpu time(s),0.003840866 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.0016629709999999999,Cpu time(s),0.001624228 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),5.33254E-4,Cpu time(s),5.80879E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.82756E-4,Cpu time(s),4.96343E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),5.51643E-4,Cpu time(s),5.91937E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),3.37065E-4,Cpu time(s),3.59251E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),3.45641E-4,Cpu time(s),3.06388E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.6556799999999997E-4,Cpu time(s),4.75405E-4 -[INFO] Tests run: 46, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.526 s - in TestSuite +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.060400026,Cpu time(s),0.008585592000000001 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.007892787,Cpu time(s),0.0029364469999999996 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),8.64234E-4,Cpu time(s),8.7779E-4 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.005186798,Cpu time(s),0.001274669 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.001109935,Cpu time(s),0.001108756 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.012847816,Cpu time(s),5.71262E-4 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.01355227,Cpu time(s),0.001038309 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),9.87631E-4,Cpu time(s),0.001357188 +[INFO] Tests run: 46, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 72.491 s - in TestSuite [INFO] [INFO] Results: [INFO] @@ -9529,8 +9565,8 @@ [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ -[INFO] Total time: 42.742 s -[INFO] Finished at: 2026-03-29T00:42:35-12:00 +[INFO] Total time: 02:51 min +[INFO] Finished at: 2025-02-24T20:53:48+14:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4' create-stamp debian/debhelper-build-stamp @@ -9559,15 +9595,15 @@ [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ -[INFO] Total time: 0.740 s -[INFO] Finished at: 2026-03-29T00:42:39-12:00 +[INFO] Total time: 5.430 s +[INFO] Finished at: 2025-02-24T20:54:15+14:00 [INFO] ------------------------------------------------------------------------ mh_resolve_dependencies --non-interactive --offline --build -plibgenomicsdb-java --base-directory=/build/reproducible-path/genomicsdb-1.5.4 --non-explore Analysing pom.xml... mh_unpatchpoms -plibgenomicsdb-java make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4' dh_auto_install -O--buildsystem=cmake -Nlibgenomicsdb-java - cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/genomicsdb-1.5.4/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j20 install DESTDIR=/build/reproducible-path/genomicsdb-1.5.4/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.4 -B/build/reproducible-path/genomicsdb-1.5.4/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -9579,33 +9615,33 @@ -- Install configuration: "None" -- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-hts.so -- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/knetfile.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/vcf_sweep.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/kstring.h -- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/faidx.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/kbitset.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/hts.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/tbx.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/regidx.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/hfile.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/knetfile.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/cram.h -- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/hts_log.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/sam.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/khash.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/kroundup.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/kfunc.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/vcf_sweep.h -- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/vcfutils.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/klist.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/hts_endian.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/tbx.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/kfunc.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/kroundup.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/vcf.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/sam.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/synced_bcf_reader.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/kstring.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/hts_os.h -- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/khash_str2int.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/kseq.h -- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/hts_defs.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/regidx.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/khash.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/hts_endian.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/ksort.h -- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/bgzf.h -- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/thread_pool.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/synced_bcf_reader.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/hfile.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/hts_os.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/vcf.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/hts.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/ksort.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/cram.h --- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/kbitset.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/klist.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/htslib/kseq.h -- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-tiledb.a -- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-tiledb.so -- Installing: /build/reproducible-path/genomicsdb-1.5.4/debian/tmp/usr/include/genomicsdb/tiledb/tiledb.h @@ -9652,7 +9688,7 @@ /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4' 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 @@ -9692,34 +9728,34 @@ 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-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: 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 log1p: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) 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' -dpkg-shlibdeps: warning: debian/libgenomicsdb1/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-hts.so contains an unresolvable reference to symbol deflateInit2_: 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 -dpkg-gencontrol: warning: package libgenomicsdb-java: substitution variable ${maven:CompileDepends} unused, but is defined dpkg-gencontrol: warning: Depends field of package libgenomicsdb-dev: substitution variable ${shlibs:Depends} used, but is not defined +dpkg-gencontrol: warning: package libgenomicsdb-java: substitution variable ${maven:CompileDepends} unused, but is defined dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake -dpkg-deb: building package 'libgenomicsdb-java' in '../libgenomicsdb-java_1.5.4-5_all.deb'. dpkg-deb: building package 'libgenomicsdb-jni' in '../libgenomicsdb-jni_1.5.4-5_amd64.deb'. -dpkg-deb: building package 'libgenomicsdb-jni-dbgsym' in '../libgenomicsdb-jni-dbgsym_1.5.4-5_amd64.deb'. +dpkg-deb: building package 'libgenomicsdb-java' in '../libgenomicsdb-java_1.5.4-5_all.deb'. dpkg-deb: building package 'genomicsdb-tools' in '../genomicsdb-tools_1.5.4-5_amd64.deb'. -dpkg-deb: building package 'genomicsdb-tools-dbgsym' in '../genomicsdb-tools-dbgsym_1.5.4-5_amd64.deb'. -dpkg-deb: building package 'libgenomicsdb1' in '../libgenomicsdb1_1.5.4-5_amd64.deb'. +dpkg-deb: building package 'libgenomicsdb-jni-dbgsym' in '../libgenomicsdb-jni-dbgsym_1.5.4-5_amd64.deb'. dpkg-deb: building package 'libgenomicsdb1-dbgsym' in '../libgenomicsdb1-dbgsym_1.5.4-5_amd64.deb'. +dpkg-deb: building package 'genomicsdb-tools-dbgsym' in '../genomicsdb-tools-dbgsym_1.5.4-5_amd64.deb'. dpkg-deb: building package 'libgenomicsdb-dev' in '../libgenomicsdb-dev_1.5.4-5_amd64.deb'. +dpkg-deb: building package 'libgenomicsdb1' in '../libgenomicsdb1_1.5.4-5_amd64.deb'. dpkg-genbuildinfo --build=binary -O../genomicsdb_1.5.4-5_amd64.buildinfo dpkg-genchanges --build=binary -O../genomicsdb_1.5.4-5_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) @@ -9727,12 +9763,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/3639457/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/3639457/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/500906 and its subdirectories -I: Current time: Sun Mar 29 00:44:10 -12 2026 -I: pbuilder-time-stamp: 1774788250 +I: removing directory /srv/workspace/pbuilder/3639457 and its subdirectories +I: Current time: Mon Feb 24 21:09:47 +14 2025 +I: pbuilder-time-stamp: 1740380987