Running as unit: rb-build-amd64_29-58968.service; invocation ID: df9c6f6b217b4c78abc7e6834dc6003f ==================================================================================== Fri Oct 31 10:39:32 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_amd64_29) on jenkins, called using "ionos1-amd64 ionos15-amd64" as arguments. Fri Oct 31 10:39:32 UTC 2025 - actually running "reproducible_build.sh" (md5sum cc591790ab2c8e13f5e554202b95c89c) as "/tmp/jenkins-script-1YGJsb0a" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Oct 31 10:39:32 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Fri Oct 31 10:39:32 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-yChg2W' Fri Oct 31 10:39:33 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos15-amd64.debian.net is marked as down. Fri Oct 31 10:39:33 UTC 2025 - checking via ssh if ionos15-amd64.debian.net is up. removed '/tmp/read-only-fs-test-bJvxpb' ok, let's check if genomicsdb is building anywhere yet… ok, genomicsdb is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of genomicsdb in forky on amd64 on jenkins now. 1st build will be done on ionos1-amd64.debian.net. 2nd build will be done on ionos15-amd64.debian.net. ============================================================================= Fri Oct 31 10:39:40 UTC 2025 I: starting to build genomicsdb/forky/amd64 on jenkins on '2025-10-31 10:39' Fri Oct 31 10:39:40 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_29/58968/console.log 1761907180 amd64 forky genomicsdb Fri Oct 31 10:39:40 UTC 2025 I: Downloading source for forky/genomicsdb=1.5.5-2 --2025-10-31 10:39:40-- http://deb.debian.org/debian/pool/main/g/genomicsdb/genomicsdb_1.5.5-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 3397 (3.3K) [text/prs.lines.tag] Saving to: ‘genomicsdb_1.5.5-2.dsc’ 0K ... 100% 342M=0s 2025-10-31 10:39:40 (342 MB/s) - ‘genomicsdb_1.5.5-2.dsc’ saved [3397/3397] --2025-10-31 10:39:40-- http://deb.debian.org/debian/pool/main/g/genomicsdb/genomicsdb_1.5.5-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 3397 (3.3K) [text/prs.lines.tag] Saving to: ‘genomicsdb_1.5.5-2.dsc’ 0K ... 100% 342M=0s 2025-10-31 10:39:40 (342 MB/s) - ‘genomicsdb_1.5.5-2.dsc’ saved [3397/3397] Fri Oct 31 10:39:40 UTC 2025 I: genomicsdb_1.5.5-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: genomicsdb Binary: libgenomicsdb-java, libgenomicsdb-jni, genomicsdb-tools, libgenomicsdb1, libgenomicsdb-dev Architecture: any all Version: 1.5.5-2 Maintainer: Debian Med Packaging Team Uploaders: Pierre Gruet Homepage: https://www.genomicsdb.org/ Standards-Version: 4.7.2 Vcs-Browser: https://salsa.debian.org/med-team/genomicsdb Vcs-Git: https://salsa.debian.org/med-team/genomicsdb.git Testsuite: autopkgtest Testsuite-Triggers: default-jdk Build-Depends: debhelper-compat (= 13), cmake, default-jdk, javahelper, libbz2-dev, libcatch2-dev, libcurlpp-dev, libfmt-dev, libmuparserx-dev, libprotobuf-dev, libspdlog-dev, libssl-dev, liblzma-dev, maven-debian-helper, mpi-default-dev, protobuf-compiler, rapidjson-dev, testng, uuid-dev Build-Depends-Arch: chrpath Build-Depends-Indep: libbuild-helper-maven-plugin-java, libcommons-io-java, libcommons-lang3-java, libgetopt-java, libguava-java, libhtsjdk-java, libjson-simple-java, liblog4j2-java, libmaven-antrun-plugin-java, libprotobuf-java, libsurefire-java Package-List: genomicsdb-tools deb science optional arch=any libgenomicsdb-dev deb libdevel optional arch=any libgenomicsdb-java deb java optional arch=all libgenomicsdb-jni deb java optional arch=any libgenomicsdb1 deb libs optional arch=any Checksums-Sha1: 7ea1900a53e268033361ac191fcccb2950345bad 1515241 genomicsdb_1.5.5.orig-genomicsdb-htslib.tar.gz f8ffebe78eb16bdd861113721345fcc6e41ebce4 950908 genomicsdb_1.5.5.orig-genomicsdb-tiledb.tar.gz 5d152f3aa61a24c24ae5f24aa5632affee0331b8 6765900 genomicsdb_1.5.5.orig.tar.gz 24dac97fd3674cdcbad06a28ea0c439d2a72e51d 29348 genomicsdb_1.5.5-2.debian.tar.xz Checksums-Sha256: 32483d1b3a37559e0f328af27a8ec67197606899796dd4e580612bd6f32cd9f3 1515241 genomicsdb_1.5.5.orig-genomicsdb-htslib.tar.gz 0f5efdfda79948e2cf706d8f921599080a88ba465c4956398feab017679e9f16 950908 genomicsdb_1.5.5.orig-genomicsdb-tiledb.tar.gz fcf3b7104e9903cb3359d5a29e065c849f90f97c842ac5c76d525a1343c1afe7 6765900 genomicsdb_1.5.5.orig.tar.gz 15301f8be0b086610cf50bf2da6b49f59b5c748bfbf0e86a0dda126318e627bb 29348 genomicsdb_1.5.5-2.debian.tar.xz Files: 89a7133f35d70b5520d583c93b9cbe94 1515241 genomicsdb_1.5.5.orig-genomicsdb-htslib.tar.gz 873d71eddc39cc659a713dba862c4fec 950908 genomicsdb_1.5.5.orig-genomicsdb-tiledb.tar.gz 33e00d57a40c62956218ee5f1db8aca4 6765900 genomicsdb_1.5.5.orig.tar.gz dbb4191eb7bc0bbfc471393544a760a7 29348 genomicsdb_1.5.5-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmjelNcACgkQYAMWptwn dHYMNg//fc2BOOy0n5DKGVakLh4+b5wsBwnS3YHUmE2jv/MfK9GrG3WwpoKjlpqo uWD/bqKvS93YZINouS29JI81JFWAXD1R00Z9N7g/5XLWRYF7P/CzLhOEjcvlWOyJ gOu/0vkqjZZcVGzRcMo1qRVZg4XaGNwERxRocp9EjEfLcvVAp0dwieJZZ+FPubgn XXcsUPOBb5xiUCnYihIDDPpEFjlpAwrD8te6KU51v1DuuwBZzB7jQregf46nbwDX XdHcgwYhwlPRaQ0Ksigg4RKhu/FuZxLoYQ4h0PbmUunvu2ilPz+8U/P3fFxL8SPK ONJ2/uoDIrFkTUtbO/+xOSLH0qO8OycYW84fD4eYQY84TfVOZcoZmQPhBvqh96ep KtJ25b3ruR6+1nD35yd4iw4SKtn59YWCTtqzM7SLKU8VD/WFIUx2UleRGV4OnIXL zdx7erTEitYWZxfmGcKf2d+Zef8VVh9x3c9Qn+uo30qh1HGILlqhfbe0LfdPqFVT E0lomJHKdKHB3ubemfkiBuK7JXXoAaUannvsFEHLDfVrr8+c93OW3AmDLaYa291R UZFWNa7JILcBh2QzJBC66HM3OqfGWvPSNOBO6cfvV4fnz6AmnC3atKLE1ek0cJAV 5MXnp4GKi3MrKraetUYNxLZEx9wpIly/ghlhbAAMZv/XSeh7KEE= =UPqL -----END PGP SIGNATURE----- Fri Oct 31 10:39:40 UTC 2025 I: Checking whether the package is not for us Fri Oct 31 10:39:40 UTC 2025 I: Starting 1st build on remote node ionos1-amd64.debian.net. Fri Oct 31 10:39:40 UTC 2025 I: Preparing to do remote build '1' on ionos1-amd64.debian.net. Fri Oct 31 10:39:40 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos1-amd64.debian.net is marked as down. Fri Oct 31 10:39:40 UTC 2025 - checking via ssh if ionos1-amd64.debian.net is up. removed '/tmp/read-only-fs-test-im8rSo' ==================================================================================== Fri Oct 31 10:39:42 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos1-amd64, called using "1 genomicsdb forky /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz 1.5.5-2" as arguments. Fri Oct 31 10:39:42 UTC 2025 - actually running "reproducible_build.sh" (md5sum cc591790ab2c8e13f5e554202b95c89c) as "/tmp/jenkins-script-PUdsTr5E" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Oct 31 10:39:42 UTC 2025 I: Downloading source for forky/genomicsdb=1.5.5-2 Reading package lists... NOTICE: 'genomicsdb' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/genomicsdb.git Please use: git clone https://salsa.debian.org/med-team/genomicsdb.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 9265 kB of source archives. Get:1 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (dsc) [3397 B] Get:2 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (tar) [1515 kB] Get:3 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (tar) [951 kB] Get:4 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (tar) [6766 kB] Get:5 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (diff) [29.3 kB] Fetched 9265 kB in 0s (140 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'genomicsdb' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/genomicsdb.git Please use: git clone https://salsa.debian.org/med-team/genomicsdb.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 9265 kB of source archives. Get:1 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (dsc) [3397 B] Get:2 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (tar) [1515 kB] Get:3 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (tar) [951 kB] Get:4 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (tar) [6766 kB] Get:5 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (diff) [29.3 kB] Fetched 9265 kB in 0s (140 MB/s) Download complete and in download only mode ============================================================================= Building genomicsdb in forky on amd64 on ionos1-amd64 now. Date: Fri Oct 31 10:39:42 UTC 2025 Date UTC: Fri Oct 31 10:39:42 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Thu Oct 30 22:39:42 -12 2025 I: pbuilder-time-stamp: 1761907182 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [genomicsdb_1.5.5-2.dsc] I: copying [./genomicsdb_1.5.5.orig-genomicsdb-htslib.tar.gz] I: copying [./genomicsdb_1.5.5.orig-genomicsdb-tiledb.tar.gz] I: copying [./genomicsdb_1.5.5.orig.tar.gz] I: copying [./genomicsdb_1.5.5-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./genomicsdb_1.5.5-2.dsc: no acceptable signature found dpkg-source: info: extracting genomicsdb in genomicsdb-1.5.5 dpkg-source: info: unpacking genomicsdb_1.5.5.orig.tar.gz dpkg-source: info: unpacking genomicsdb_1.5.5.orig-genomicsdb-htslib.tar.gz dpkg-source: info: unpacking genomicsdb_1.5.5.orig-genomicsdb-tiledb.tar.gz dpkg-source: info: unpacking genomicsdb_1.5.5-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no_download_of_dependencies.patch dpkg-source: info: applying using_htslib_from_component.patch dpkg-source: info: applying using_timedb_from_component.patch dpkg-source: info: applying strip_tiledb_CMakeLists.patch dpkg-source: info: applying ignoring_sdk_to_download.patch dpkg-source: info: applying use_shared_protobuf_lib.patch dpkg-source: info: applying missing_links_in_libs.patch dpkg-source: info: applying pom.patch dpkg-source: info: applying no_spark_in_Java_build.patch dpkg-source: info: applying tests_in_all_target.patch dpkg-source: info: applying run_tests_in_not_yet_installed_dir.patch dpkg-source: info: applying build_jni.patch dpkg-source: info: applying library_names_and_install_paths.patch dpkg-source: info: applying htslib_define_PATH_MAX.patch dpkg-source: info: applying htslib_testShebang.patch dpkg-source: info: applying htslib_fix_float_precision dpkg-source: info: applying handling_rpaths.patch dpkg-source: info: applying disabling_mpi_for_tests.patch dpkg-source: info: applying JsonFormat_from_libprotobuf-java.patch dpkg-source: info: applying gcc-13.patch dpkg-source: info: applying catch2_3.patch dpkg-source: info: applying variant_array_schema_hidden_if_no_DEBUG.patch dpkg-source: info: applying rapidjson_methods.patch dpkg-source: info: applying query_config_serialization.patch dpkg-source: info: applying fmt10.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/4101407/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=40 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='d4deea2ec77c4b889b846e78cfcef225' 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='4101407' PS1='# ' PS2='> ' 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.WjSuggWz/pbuilderrc_pay4 --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b1 --logfile b1/build.log genomicsdb_1.5.5-2.dsc' SUDO_GID='110' SUDO_HOME='/var/lib/jenkins' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos1-amd64 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/4101407/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cmake, default-jdk, javahelper, libbz2-dev, libcatch2-dev, libcurlpp-dev, libfmt-dev, libmuparserx-dev, libprotobuf-dev, libspdlog-dev, libssl-dev, liblzma-dev, maven-debian-helper, mpi-default-dev, protobuf-compiler, rapidjson-dev, testng, uuid-dev, libbuild-helper-maven-plugin-java, libcommons-io-java, libcommons-lang3-java, libgetopt-java, libguava-java, libhtsjdk-java, libjson-simple-java, liblog4j2-java, libmaven-antrun-plugin-java, libprotobuf-java, libsurefire-java, chrpath dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19869 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on default-jdk; however: Package default-jdk is not installed. pbuilder-satisfydepends-dummy depends on javahelper; however: Package javahelper is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on libcatch2-dev; however: Package libcatch2-dev is not installed. pbuilder-satisfydepends-dummy depends on libcurlpp-dev; however: Package libcurlpp-dev is not installed. pbuilder-satisfydepends-dummy depends on libfmt-dev; however: Package libfmt-dev is not installed. pbuilder-satisfydepends-dummy depends on libmuparserx-dev; however: Package libmuparserx-dev is not installed. pbuilder-satisfydepends-dummy depends on libprotobuf-dev; however: Package libprotobuf-dev is not installed. pbuilder-satisfydepends-dummy depends on libspdlog-dev; however: Package libspdlog-dev is not installed. pbuilder-satisfydepends-dummy depends on libssl-dev; however: Package libssl-dev is not installed. pbuilder-satisfydepends-dummy depends on liblzma-dev; however: Package liblzma-dev is not installed. pbuilder-satisfydepends-dummy depends on maven-debian-helper; however: Package maven-debian-helper is not installed. pbuilder-satisfydepends-dummy depends on mpi-default-dev; however: Package mpi-default-dev is not installed. pbuilder-satisfydepends-dummy depends on protobuf-compiler; however: Package protobuf-compiler is not installed. pbuilder-satisfydepends-dummy depends on rapidjson-dev; however: Package rapidjson-dev is not installed. pbuilder-satisfydepends-dummy depends on testng; however: Package testng is not installed. pbuilder-satisfydepends-dummy depends on uuid-dev; however: Package uuid-dev is not installed. pbuilder-satisfydepends-dummy depends on libbuild-helper-maven-plugin-java; however: Package libbuild-helper-maven-plugin-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-io-java; however: Package libcommons-io-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-lang3-java; however: Package libcommons-lang3-java is not installed. pbuilder-satisfydepends-dummy depends on libgetopt-java; however: Package libgetopt-java is not installed. pbuilder-satisfydepends-dummy depends on libguava-java; however: Package libguava-java is not installed. pbuilder-satisfydepends-dummy depends on libhtsjdk-java; however: Package libhtsjdk-java is not installed. pbuilder-satisfydepends-dummy depends on libjson-simple-java; however: Package libjson-simple-java is not installed. pbuilder-satisfydepends-dummy depends on liblog4j2-java; however: Package liblog4j2-java is not installed. pbuilder-satisfydepends-dummy depends on libmaven-antrun-plugin-java; however: Package libmaven-antrun-plugin-java is not installed. pbuilder-satisfydepends-dummy depends on libprotobuf-java; however: Package libprotobuf-java is not installed. pbuilder-satisfydepends-dummy depends on libsurefire-java; however: Package libsurefire-java is not installed. pbuilder-satisfydepends-dummy depends on chrpath; however: Package chrpath is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: adwaita-icon-theme{a} ant{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} binfmt-support{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} chrpath{a} cmake{a} cmake-data{a} comerr-dev{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} fastjar{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} gfortran-15{a} gfortran-15-x86-64-linux-gnu{a} gpg{a} gpg-agent{a} gpgconf{a} groff-base{a} gtk-update-icon-cache{a} hicolor-icon-theme{a} ibverbs-providers{a} intltool-debian{a} jarwrapper{a} java-common{a} javahelper{a} junit4{a} junit5{a} krb5-multidev{a} libamd-comgr2{a} libamdhip64-5{a} libaopalliance-java{a} libapache-pom-java{a} libapiguardian-java{a} libapparmor1{a} libarchive-zip-perl{a} libarchive13t64{a} libasm-java{a} libasound2-data{a} libasound2t64{a} libassuan9{a} libatinject-jsr330-api-java{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbrotli-dev{a} libbrotli1{a} libbsh-java{a} libbuild-helper-maven-plugin-java{a} libbz2-dev{a} libcairo-gobject2{a} libcairo2{a} libcatch2-dev{a} libcbor0.10{a} libcdi-api-java{a} libclass-method-modifiers-perl{a} libclass-xsaccessor-perl{a} libclone-perl{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcommons-beanutils-java{a} libcommons-cli-java{a} libcommons-codec-java{a} libcommons-collections3-java{a} libcommons-collections4-java{a} libcommons-compress-java{a} libcommons-digester-java{a} libcommons-io-java{a} libcommons-jexl2-java{a} libcommons-lang-java{a} libcommons-lang3-java{a} libcommons-logging-java{a} libcommons-parent-java{a} libcommons-text-java{a} libcommons-validator-java{a} libcups2t64{a} libcurl4-openssl-dev{a} libcurl4t64{a} libcurlpp-dev{a} libcurlpp0t64{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate0{a} libdevel-callchecker-perl{a} libdom4j-java{a} libdoxia-core-java{a} libdoxia-java{a} libdoxia-sitetools-java{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm2{a} libdynaloader-functions-perl{a} libedit2{a} libel-api-java{a} libelf1t64{a} libencode-locale-perl{a} libepoxy0{a} liberror-prone-java{a} libevent-2.1-7t64{a} libevent-core-2.1-7t64{a} libevent-dev{a} libevent-extra-2.1-7t64{a} libevent-openssl-2.1-7t64{a} libevent-pthreads-2.1-7t64{a} libexpat1{a} libezmorph-java{a} libfabric1{a} libffi8{a} libfido2-1{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libfmt-dev{a} libfmt10{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgbm1{a} libgcrypt20{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgeronimo-annotation-1.3-spec-java{a} libgeronimo-interceptor-3.0-spec-java{a} libgetopt-java{a} libgfortran-15-dev{a} libgfortran5{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglib2.0-0t64{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgoogle-gson-java{a} libgpg-error0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgtk-3-0t64{a} libgtk-3-common{a} libguava-java{a} libguice-java{a} libhamcrest-java{a} libharfbuzz0b{a} libhsa-runtime64-1{a} libhsakmt1{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhtsjdk-java{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libhttpclient-java{a} libhttpcore-java{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc15{a} libibmad5{a} libibumad3{a} libibverbs-dev{a} libibverbs1{a} libidn2-0{a} libidn2-dev{a} libimport-into-perl{a} libio-html-perl{a} libio-socket-ssl-perl{a} libio-string-perl{a} libjansi-java{a} libjaxen-java{a} libjbig0{a} libjcommander-java{a} libjetty9-java{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjson-java{a} libjson-simple-java{a} libjsoncpp26{a} libjsoup-java{a} libjsp-api-java{a} libjsr305-java{a} libjtidy-java{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libksba8{a} liblcms2-2{a} libldap-dev{a} libldap2{a} liblerc4{a} liblightcouch-java{a} libllvm17t64{a} libllvm19{a} liblog4j2-java{a} libltdl-dev{a} libltdl7{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmaven-antrun-plugin-java{a} libmaven-archiver-java{a} libmaven-clean-plugin-java{a} libmaven-common-artifact-filters-java{a} libmaven-compiler-plugin-java{a} libmaven-file-management-java{a} libmaven-filtering-java{a} libmaven-jar-plugin-java{a} libmaven-parent-java{a} libmaven-plugin-tools-java{a} libmaven-reporting-api-java{a} libmaven-reporting-exec-java{a} libmaven-reporting-impl-java{a} libmaven-resolver-java{a} libmaven-resources-plugin-java{a} libmaven-shared-incremental-java{a} libmaven-shared-io-java{a} libmaven-shared-utils-java{a} libmaven-site-plugin-java{a} libmaven3-core-java{a} libmbedcrypto16{a} libmbedtls21{a} libmbedx509-7{a} libmodule-runtime-perl{a} libmongodb-java{a} libmoo-perl{a} libmunge2{a} libmuparserx-dev{a} libmuparserx4.0.12{a} libncbi-ngs3{a} libncbi-vdb3{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngs-java{a} libngs-jni{a} libngtcp2-16{a} libngtcp2-crypto-ossl-dev{a} libngtcp2-crypto-ossl0{a} libngtcp2-dev{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnpth0t64{a} libnspr4{a} libnss3{a} libnuma-dev{a} libnuma1{a} libopenmpi-dev{a} libopenmpi40{a} libopentest4j-java{a} libopentest4j-reporting-java{a} liboro-java{a} libp11-kit-dev{a} libp11-kit0{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libparams-classify-perl{a} libpciaccess0{a} libpcsclite1{a} libpicocli-java{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libplexus-ant-factory-java{a} libplexus-archiver-java{a} libplexus-bsh-factory-java{a} libplexus-build-api-java{a} libplexus-cipher-java{a} libplexus-classworlds-java{a} libplexus-compiler-java{a} libplexus-component-annotations-java{a} libplexus-container-default-java{a} libplexus-container-default1.5-java{a} libplexus-i18n-java{a} libplexus-interpolation-java{a} libplexus-io-java{a} libplexus-languages-java{a} libplexus-sec-dispatcher-java{a} libplexus-utils2-java{a} libplexus-velocity-java{a} libplexus-xml-java{a} libpmix2t64{a} libpng16-16t64{a} libproc2-0{a} libprotobuf-dev{a} libprotobuf-java{a} libprotobuf-lite32t64{a} libprotobuf32t64{a} libprotoc32t64{a} libpsl-dev{a} libpsl5t64{a} libpsm2-2{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libqdox2-java{a} librdmacm1t64{a} libreadline8t64{a} librhash1{a} librhino-java{a} librole-tiny-perl{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libservlet-api-java{a} libsharpyuv0{a} libsisu-inject-java{a} libsisu-plexus-java{a} libslf4j-java{a} libsnappy-java{a} libsnappy-jni{a} libsnappy1v5{a} libspdlog-dev{a} libspdlog1.15{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsub-quote-perl{a} libsurefire-java{a} libsystemd-shared{a} libtasn1-6{a} libtasn1-6-dev{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} libucx0{a} libunbound8{a} libunistring5{a} libunivocity-parsers-java{a} liburi-perl{a} libuv1t64{a} libvelocity-tools-java{a} libvulkan1{a} libwagon-file-java{a} libwagon-http-java{a} libwagon-provider-api-java{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwebp7{a} libwebsocket-api-java{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxbean-reflect-java{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxerces2-java{a} libxext6{a} libxfixes3{a} libxi6{a} libxinerama1{a} libxkbcommon0{a} libxml-commons-external-java{a} libxml-commons-resolver1.1-java{a} libxml2-16{a} libxml2-utils{a} libxnvctrl0{a} libxom-java{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxtst6{a} libxxf86vm1{a} libxz-java{a} libz3-4{a} libze1{a} libzstd-dev{a} m4{a} man-db{a} maven{a} maven-debian-helper{a} maven-repo-helper{a} media-types{a} mesa-libgallium{a} mpi-default-dev{a} ncbi-vdb-data{a} netbase{a} nettle-dev{a} ocl-icd-libopencl1{a} openjdk-21-jdk{a} openjdk-21-jdk-headless{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} openssl{a} patchutils{a} perl-openssl-defaults{a} pinentry-curses{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} protobuf-compiler{a} python3{a} python3-minimal{a} python3.13{a} python3.13-minimal{a} rapidjson-dev{a} readline-common{a} rsopv{a} sensible-utils{a} sgml-base{a} shared-mime-info{a} systemd{a} systemd-sysv{a} testng{a} tzdata{a} unzip{a} uuid-dev{a} velocity{a} wdiff{a} x11-common{a} xkb-data{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf ant-optional at-spi2-core bzip2-doc chrony curl debian-keyring debian-tag2upload-keyring dput dput-ng dupload equivs fonts-dejavu-extra git-debpush gnupg javascript-common krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libdata-dump-perl libdistro-info-perl libgdk-pixbuf2.0-bin libgitlab-api-v4-perl libglib2.0-data libgpg-error-l10n libgtk-3-bin libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libio-compress-brotli-perl libjson-perl libkmod2 libldap-common libmail-sendmail-perl libmailtools-perl libmetacpan-client-perl libnamespace-clean-perl libnss-systemd librsvg2-common libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libtasn1-doc libxstring-perl libxt-dev libyaml-snake-java licensecheck lintian linux-sysctl-defaults login lynx lzip mesa-vulkan-drivers ntpsec openntpd pristine-tar psmisc publicsuffix python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg strace systemd-cryptsetup systemd-timesyncd wget xauth xdg-user-dirs 0 packages upgraded, 498 newly installed, 0 to remove and 0 not upgraded. Need to get 390 MB of archives. After unpacking 1272 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main amd64 libsystemd-shared amd64 258.1-2 [2253 kB] Get: 2 http://deb.debian.org/debian forky/main amd64 systemd amd64 258.1-2 [3229 kB] Get: 3 http://deb.debian.org/debian forky/main amd64 systemd-sysv amd64 258.1-2 [63.8 kB] Get: 4 http://deb.debian.org/debian forky/main amd64 libdbus-1-3 amd64 1.16.2-2 [178 kB] Get: 5 http://deb.debian.org/debian forky/main amd64 dbus-bin amd64 1.16.2-2 [80.0 kB] Get: 6 http://deb.debian.org/debian forky/main amd64 dbus-session-bus-common all 1.16.2-2 [52.3 kB] Get: 7 http://deb.debian.org/debian forky/main amd64 libapparmor1 amd64 4.1.0-1 [43.7 kB] Get: 8 http://deb.debian.org/debian forky/main amd64 libexpat1 amd64 2.7.3-1 [112 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 dbus-daemon amd64 1.16.2-2 [159 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 dbus-system-bus-common all 1.16.2-2 [53.5 kB] Get: 11 http://deb.debian.org/debian forky/main amd64 dbus amd64 1.16.2-2 [71.6 kB] Get: 12 http://deb.debian.org/debian forky/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 13 http://deb.debian.org/debian forky/main amd64 binfmt-support amd64 2.2.2-7 [64.3 kB] Get: 14 http://deb.debian.org/debian forky/main amd64 libpython3.13-minimal amd64 3.13.9-1 [865 kB] Get: 15 http://deb.debian.org/debian forky/main amd64 python3.13-minimal amd64 3.13.9-1 [2257 kB] Get: 16 http://deb.debian.org/debian forky/main amd64 python3-minimal amd64 3.13.7-1 [27.2 kB] Get: 17 http://deb.debian.org/debian forky/main amd64 media-types all 14.0.0 [30.8 kB] Get: 18 http://deb.debian.org/debian forky/main amd64 netbase all 6.5 [12.4 kB] Get: 19 http://deb.debian.org/debian forky/main amd64 tzdata all 2025b-5 [260 kB] Get: 20 http://deb.debian.org/debian forky/main amd64 libffi8 amd64 3.5.2-2 [25.5 kB] Get: 21 http://deb.debian.org/debian forky/main amd64 readline-common all 8.3-3 [74.8 kB] Get: 22 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.3-3 [191 kB] Get: 23 http://deb.debian.org/debian forky/main amd64 libpython3.13-stdlib amd64 3.13.9-1 [1965 kB] Get: 24 http://deb.debian.org/debian forky/main amd64 python3.13 amd64 3.13.9-1 [764 kB] Get: 25 http://deb.debian.org/debian forky/main amd64 libpython3-stdlib amd64 3.13.7-1 [10.2 kB] Get: 26 http://deb.debian.org/debian forky/main amd64 python3 amd64 3.13.7-1 [28.3 kB] Get: 27 http://deb.debian.org/debian forky/main amd64 libproc2-0 amd64 2:4.0.4-9 [65.6 kB] Get: 28 http://deb.debian.org/debian forky/main amd64 procps amd64 2:4.0.4-9 [882 kB] Get: 29 http://deb.debian.org/debian forky/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 30 http://deb.debian.org/debian forky/main amd64 openssl amd64 3.5.4-1 [1496 kB] Get: 31 http://deb.debian.org/debian forky/main amd64 ca-certificates all 20250419 [162 kB] Get: 32 http://deb.debian.org/debian forky/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 33 http://deb.debian.org/debian forky/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 34 http://deb.debian.org/debian forky/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 35 http://deb.debian.org/debian forky/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 36 http://deb.debian.org/debian forky/main amd64 libuchardet0 amd64 0.0.8-2 [68.5 kB] Get: 37 http://deb.debian.org/debian forky/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 38 http://deb.debian.org/debian forky/main amd64 libpam-systemd amd64 258.1-2 [312 kB] Get: 39 http://deb.debian.org/debian forky/main amd64 bsdextrautils amd64 2.41.2-4 [98.5 kB] Get: 40 http://deb.debian.org/debian forky/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 41 http://deb.debian.org/debian forky/main amd64 libedit2 amd64 3.1-20250104-1 [93.8 kB] Get: 42 http://deb.debian.org/debian forky/main amd64 libcbor0.10 amd64 0.10.2-2 [28.3 kB] Get: 43 http://deb.debian.org/debian forky/main amd64 libfido2-1 amd64 1.16.0-2 [78.8 kB] Get: 44 http://deb.debian.org/debian forky/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 45 http://deb.debian.org/debian forky/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get: 46 http://deb.debian.org/debian forky/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 47 http://deb.debian.org/debian forky/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 48 http://deb.debian.org/debian forky/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 49 http://deb.debian.org/debian forky/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 50 http://deb.debian.org/debian forky/main amd64 openssh-client amd64 1:10.2p1-2 [1031 kB] Get: 51 http://deb.debian.org/debian forky/main amd64 libgdk-pixbuf2.0-common all 2.44.4+dfsg-1 [313 kB] Get: 52 http://deb.debian.org/debian forky/main amd64 libglib2.0-0t64 amd64 2.86.1-1 [1546 kB] Get: 53 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.6+dfsg-0.1 [651 kB] Get: 54 http://deb.debian.org/debian forky/main amd64 shared-mime-info amd64 2.4-5+b3 [758 kB] Get: 55 http://deb.debian.org/debian forky/main amd64 libjpeg62-turbo amd64 1:2.1.5-4 [168 kB] Get: 56 http://deb.debian.org/debian forky/main amd64 libpng16-16t64 amd64 1.6.50-1 [282 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 libdeflate0 amd64 1.23-2 [47.3 kB] Get: 58 http://deb.debian.org/debian forky/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get: 59 http://deb.debian.org/debian forky/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get: 60 http://deb.debian.org/debian forky/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [116 kB] Get: 61 http://deb.debian.org/debian forky/main amd64 libwebp7 amd64 1.5.0-0.1 [318 kB] Get: 62 http://deb.debian.org/debian forky/main amd64 libtiff6 amd64 4.7.1-1 [361 kB] Get: 63 http://deb.debian.org/debian forky/main amd64 libgdk-pixbuf-2.0-0 amd64 2.44.4+dfsg-1 [144 kB] Get: 64 http://deb.debian.org/debian forky/main amd64 gtk-update-icon-cache amd64 4.20.2+ds-2 [53.6 kB] Get: 65 http://deb.debian.org/debian forky/main amd64 hicolor-icon-theme all 0.18-2 [11.8 kB] Get: 66 http://deb.debian.org/debian forky/main amd64 adwaita-icon-theme all 49.0-1 [507 kB] Get: 67 http://deb.debian.org/debian forky/main amd64 ca-certificates-java all 20240118 [11.6 kB] Get: 68 http://deb.debian.org/debian forky/main amd64 java-common all 0.76 [6776 B] Get: 69 http://deb.debian.org/debian forky/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get: 70 http://deb.debian.org/debian forky/main amd64 libnspr4 amd64 2:4.37-1 [111 kB] Get: 71 http://deb.debian.org/debian forky/main amd64 libnss3 amd64 2:3.117-1 [1429 kB] Get: 72 http://deb.debian.org/debian forky/main amd64 libpcsclite1 amd64 2.4.0-1 [55.7 kB] Get: 73 http://deb.debian.org/debian forky/main amd64 openjdk-21-jre-headless amd64 21.0.9+10-1 [41.9 MB] Get: 74 http://deb.debian.org/debian forky/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B] Get: 75 http://deb.debian.org/debian forky/main amd64 ant all 1.10.15-1 [2163 kB] Get: 76 http://deb.debian.org/debian forky/main amd64 at-spi2-common all 2.58.1-1 [173 kB] Get: 77 http://deb.debian.org/debian forky/main amd64 m4 amd64 1.4.20-2 [325 kB] Get: 78 http://deb.debian.org/debian forky/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 79 http://deb.debian.org/debian forky/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 80 http://deb.debian.org/debian forky/main amd64 automake all 1:1.18.1-2 [877 kB] Get: 81 http://deb.debian.org/debian forky/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 82 http://deb.debian.org/debian forky/main amd64 chrpath amd64 0.18-1 [13.5 kB] Get: 83 http://deb.debian.org/debian forky/main amd64 cmake-data all 4.1.1+really3.31.6-2 [2268 kB] Get: 84 http://deb.debian.org/debian forky/main amd64 libarchive13t64 amd64 3.7.4-4+b1 [349 kB] Get: 85 http://deb.debian.org/debian forky/main amd64 libnghttp3-9 amd64 1.12.0-1 [68.4 kB] Get: 86 http://deb.debian.org/debian forky/main amd64 libngtcp2-16 amd64 1.16.0-1 [136 kB] Get: 87 http://deb.debian.org/debian forky/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 88 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 89 http://deb.debian.org/debian forky/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get: 90 http://deb.debian.org/debian forky/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-10 [19.8 kB] Get: 91 http://deb.debian.org/debian forky/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-10 [57.8 kB] Get: 92 http://deb.debian.org/debian forky/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 93 http://deb.debian.org/debian forky/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get: 94 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-ossl0 amd64 1.16.0-1 [27.5 kB] Get: 95 http://deb.debian.org/debian forky/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 96 http://deb.debian.org/debian forky/main amd64 libp11-kit0 amd64 0.25.9-2 [443 kB] Get: 97 http://deb.debian.org/debian forky/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 98 http://deb.debian.org/debian forky/main amd64 libgnutls30t64 amd64 3.8.10-3 [1493 kB] Get: 99 http://deb.debian.org/debian forky/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get: 100 http://deb.debian.org/debian forky/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 101 http://deb.debian.org/debian forky/main amd64 libcurl4t64 amd64 8.17.0~rc2-1 [408 kB] Get: 102 http://deb.debian.org/debian forky/main amd64 libjsoncpp26 amd64 1.9.6-4 [89.4 kB] Get: 103 http://deb.debian.org/debian forky/main amd64 librhash1 amd64 1.4.6-1 [137 kB] Get: 104 http://deb.debian.org/debian forky/main amd64 libuv1t64 amd64 1.51.0-2 [155 kB] Get: 105 http://deb.debian.org/debian forky/main amd64 cmake amd64 4.1.1+really3.31.6-2 [12.2 MB] Get: 106 http://deb.debian.org/debian forky/main amd64 comerr-dev amd64 2.1-1.47.2-3+b3 [56.7 kB] Get: 107 http://deb.debian.org/debian forky/main amd64 dbus-user-session amd64 1.16.2-2 [52.1 kB] Get: 108 http://deb.debian.org/debian forky/main amd64 libdconf1 amd64 0.49.0-1 [43.6 kB] Get: 109 http://deb.debian.org/debian forky/main amd64 dconf-service amd64 0.49.0-1 [33.7 kB] Get: 110 http://deb.debian.org/debian forky/main amd64 dconf-gsettings-backend amd64 0.49.0-1 [29.8 kB] Get: 111 http://deb.debian.org/debian forky/main amd64 dctrl-tools amd64 2.24-3+b1 [104 kB] Get: 112 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.28 [92.4 kB] Get: 113 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-7 [540 kB] Get: 114 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 21 [12.2 kB] Get: 115 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 116 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 117 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 118 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.193-3 [192 kB] Get: 119 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.16-2 [108 kB] Get: 120 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 121 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 122 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 123 http://deb.debian.org/debian forky/main amd64 debhelper all 13.28 [941 kB] Get: 124 http://deb.debian.org/debian forky/main amd64 libatk1.0-0t64 amd64 2.58.1-1 [53.0 kB] Get: 125 http://deb.debian.org/debian forky/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 126 http://deb.debian.org/debian forky/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get: 127 http://deb.debian.org/debian forky/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 128 http://deb.debian.org/debian forky/main amd64 libx11-data all 2:1.8.12-1 [343 kB] Get: 129 http://deb.debian.org/debian forky/main amd64 libx11-6 amd64 2:1.8.12-1 [815 kB] Get: 130 http://deb.debian.org/debian forky/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB] Get: 131 http://deb.debian.org/debian forky/main amd64 libxi6 amd64 2:1.8.2-1 [78.9 kB] Get: 132 http://deb.debian.org/debian forky/main amd64 libatspi2.0-0t64 amd64 2.58.1-1 [81.8 kB] Get: 133 http://deb.debian.org/debian forky/main amd64 libatk-bridge2.0-0t64 amd64 2.58.1-1 [69.7 kB] Get: 134 http://deb.debian.org/debian forky/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 135 http://deb.debian.org/debian forky/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 136 http://deb.debian.org/debian forky/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 137 http://deb.debian.org/debian forky/main amd64 fontconfig-config amd64 2.15.0-2.4 [318 kB] Get: 138 http://deb.debian.org/debian forky/main amd64 libfontconfig1 amd64 2.15.0-2.4 [401 kB] Get: 139 http://deb.debian.org/debian forky/main amd64 libpixman-1-0 amd64 0.46.4-1 [259 kB] Get: 140 http://deb.debian.org/debian forky/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get: 141 http://deb.debian.org/debian forky/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get: 142 http://deb.debian.org/debian forky/main amd64 libxrender1 amd64 1:0.9.12-1 [27.9 kB] Get: 143 http://deb.debian.org/debian forky/main amd64 libcairo2 amd64 1.18.4-1+b1 [538 kB] Get: 144 http://deb.debian.org/debian forky/main amd64 libcairo-gobject2 amd64 1.18.4-1+b1 [130 kB] Get: 145 http://deb.debian.org/debian forky/main amd64 libcloudproviders0 amd64 0.3.6-3 [32.9 kB] Get: 146 http://deb.debian.org/debian forky/main amd64 libcolord2 amd64 1.4.8-2 [140 kB] Get: 147 http://deb.debian.org/debian forky/main amd64 libavahi-common-data amd64 0.8-17 [112 kB] Get: 148 http://deb.debian.org/debian forky/main amd64 libavahi-common3 amd64 0.8-17 [47.3 kB] Get: 149 http://deb.debian.org/debian forky/main amd64 libavahi-client3 amd64 0.8-17 [52.1 kB] Get: 150 http://deb.debian.org/debian forky/main amd64 libcups2t64 amd64 2.4.14-1 [255 kB] Get: 151 http://deb.debian.org/debian forky/main amd64 libepoxy0 amd64 1.5.10-2 [193 kB] Get: 152 http://deb.debian.org/debian forky/main amd64 libfribidi0 amd64 1.0.16-3 [26.6 kB] Get: 153 http://deb.debian.org/debian forky/main amd64 libgraphite2-3 amd64 1.3.14-11 [76.7 kB] Get: 154 http://deb.debian.org/debian forky/main amd64 libharfbuzz0b amd64 12.1.0-1 [530 kB] Get: 155 http://deb.debian.org/debian forky/main amd64 fontconfig amd64 2.15.0-2.4 [464 kB] Get: 156 http://deb.debian.org/debian forky/main amd64 libthai-data all 0.1.29-2 [168 kB] Get: 157 http://deb.debian.org/debian forky/main amd64 libdatrie1 amd64 0.2.13-4 [38.0 kB] Get: 158 http://deb.debian.org/debian forky/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get: 159 http://deb.debian.org/debian forky/main amd64 libpango-1.0-0 amd64 1.56.3-2 [239 kB] Get: 160 http://deb.debian.org/debian forky/main amd64 libpangoft2-1.0-0 amd64 1.56.3-2 [62.0 kB] Get: 161 http://deb.debian.org/debian forky/main amd64 libpangocairo-1.0-0 amd64 1.56.3-2 [38.1 kB] Get: 162 http://deb.debian.org/debian forky/main amd64 libwayland-client0 amd64 1.24.0-2+b1 [28.5 kB] Get: 163 http://deb.debian.org/debian forky/main amd64 libwayland-cursor0 amd64 1.24.0-2+b1 [12.3 kB] Get: 164 http://deb.debian.org/debian forky/main amd64 libwayland-egl1 amd64 1.24.0-2+b1 [6224 B] Get: 165 http://deb.debian.org/debian forky/main amd64 libxcomposite1 amd64 1:0.4.6-1 [16.3 kB] Get: 166 http://deb.debian.org/debian forky/main amd64 libxfixes3 amd64 1:6.0.0-2+b4 [20.2 kB] Get: 167 http://deb.debian.org/debian forky/main amd64 libxcursor1 amd64 1:1.2.3-1 [39.7 kB] Get: 168 http://deb.debian.org/debian forky/main amd64 libxdamage1 amd64 1:1.1.6-1+b2 [15.5 kB] Get: 169 http://deb.debian.org/debian forky/main amd64 libxinerama1 amd64 2:1.1.4-3+b4 [16.0 kB] Get: 170 http://deb.debian.org/debian forky/main amd64 xkb-data all 2.42-1 [790 kB] Get: 171 http://deb.debian.org/debian forky/main amd64 libxkbcommon0 amd64 1.7.0-2.1 [113 kB] Get: 172 http://deb.debian.org/debian forky/main amd64 libxrandr2 amd64 2:1.5.4-1+b3 [36.3 kB] Get: 173 http://deb.debian.org/debian forky/main amd64 libgtk-3-common all 3.24.51-1 [4922 kB] Get: 174 http://deb.debian.org/debian forky/main amd64 libgtk-3-0t64 amd64 3.24.51-1 [2932 kB] Get: 175 http://deb.debian.org/debian forky/main amd64 libglvnd0 amd64 1.7.0-1+b2 [52.0 kB] Get: 176 http://deb.debian.org/debian forky/main amd64 libdrm-common all 2.4.127-1 [9060 B] Get: 177 http://deb.debian.org/debian forky/main amd64 libdrm2 amd64 2.4.127-1 [39.8 kB] Get: 178 http://deb.debian.org/debian forky/main amd64 libx11-xcb1 amd64 2:1.8.12-1 [247 kB] Get: 179 http://deb.debian.org/debian forky/main amd64 libxcb-dri3-0 amd64 1.17.0-2+b1 [107 kB] Get: 180 http://deb.debian.org/debian forky/main amd64 libxcb-glx0 amd64 1.17.0-2+b1 [122 kB] Get: 181 http://deb.debian.org/debian forky/main amd64 libxcb-present0 amd64 1.17.0-2+b1 [106 kB] Get: 182 http://deb.debian.org/debian forky/main amd64 libxcb-xfixes0 amd64 1.17.0-2+b1 [109 kB] Get: 183 http://deb.debian.org/debian forky/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b4 [19.3 kB] Get: 184 http://deb.debian.org/debian forky/main amd64 libdrm-amdgpu1 amd64 2.4.127-1 [23.8 kB] Get: 185 http://deb.debian.org/debian forky/main amd64 libpciaccess0 amd64 0.17-3+b3 [51.9 kB] Get: 186 http://deb.debian.org/debian forky/main amd64 libdrm-intel1 amd64 2.4.127-1 [65.6 kB] Get: 187 http://deb.debian.org/debian forky/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 188 http://deb.debian.org/debian forky/main amd64 libllvm19 amd64 1:19.1.7-7 [25.9 MB] Get: 189 http://deb.debian.org/debian forky/main amd64 libsensors-config all 1:3.6.2-2 [16.2 kB] Get: 190 http://deb.debian.org/debian forky/main amd64 libsensors5 amd64 1:3.6.2-2 [37.5 kB] Get: 191 http://deb.debian.org/debian forky/main amd64 libxcb-randr0 amd64 1.17.0-2+b1 [117 kB] Get: 192 http://deb.debian.org/debian forky/main amd64 libxcb-sync1 amd64 1.17.0-2+b1 [109 kB] Get: 193 http://deb.debian.org/debian forky/main amd64 libxshmfence1 amd64 1.3.3-1 [10.9 kB] Get: 194 http://deb.debian.org/debian forky/main amd64 mesa-libgallium amd64 25.2.5-1 [10.3 MB] Get: 195 http://deb.debian.org/debian forky/main amd64 libgbm1 amd64 25.2.5-1 [46.0 kB] Get: 196 http://deb.debian.org/debian forky/main amd64 libvulkan1 amd64 1.4.321.0-1 [133 kB] Get: 197 http://deb.debian.org/debian forky/main amd64 libgl1-mesa-dri amd64 25.2.5-1 [47.8 kB] Get: 198 http://deb.debian.org/debian forky/main amd64 libglx-mesa0 amd64 25.2.5-1 [116 kB] Get: 199 http://deb.debian.org/debian forky/main amd64 libglx0 amd64 1.7.0-1+b2 [34.9 kB] Get: 200 http://deb.debian.org/debian forky/main amd64 libgl1 amd64 1.7.0-1+b2 [89.5 kB] Get: 201 http://deb.debian.org/debian forky/main amd64 libasound2-data all 1.2.14-2 [21.1 kB] Get: 202 http://deb.debian.org/debian forky/main amd64 libasound2t64 amd64 1.2.14-2 [420 kB] Get: 203 http://deb.debian.org/debian forky/main amd64 libgif7 amd64 5.2.2-1+b1 [44.2 kB] Get: 204 http://deb.debian.org/debian forky/main amd64 x11-common all 1:7.7+26 [217 kB] Get: 205 http://deb.debian.org/debian forky/main amd64 libxtst6 amd64 2:1.2.5-1 [25.8 kB] Get: 206 http://deb.debian.org/debian forky/main amd64 openjdk-21-jre amd64 21.0.9+10-1 [210 kB] Get: 207 http://deb.debian.org/debian forky/main amd64 default-jre amd64 2:1.21-76 [1068 B] Get: 208 http://deb.debian.org/debian forky/main amd64 openjdk-21-jdk-headless amd64 21.0.9+10-1 [83.0 MB] Get: 209 http://deb.debian.org/debian forky/main amd64 default-jdk-headless amd64 2:1.21-76 [1124 B] Get: 210 http://deb.debian.org/debian forky/main amd64 openjdk-21-jdk amd64 21.0.9+10-1 [3523 kB] Get: 211 http://deb.debian.org/debian forky/main amd64 default-jdk amd64 2:1.21-76 [1076 B] Get: 212 http://deb.debian.org/debian forky/main amd64 libgpg-error0 amd64 1.56-2 [89.1 kB] Get: 213 http://deb.debian.org/debian forky/main amd64 libassuan9 amd64 3.0.2-2 [61.5 kB] Get: 214 http://deb.debian.org/debian forky/main amd64 libgcrypt20 amd64 1.11.2-2 [865 kB] Get: 215 http://deb.debian.org/debian forky/main amd64 gpgconf amd64 2.4.8-4 [129 kB] Get: 216 http://deb.debian.org/debian forky/main amd64 libksba8 amd64 1.6.7-2+b1 [136 kB] Get: 217 http://deb.debian.org/debian forky/main amd64 libnpth0t64 amd64 1.8-3 [23.2 kB] Get: 218 http://deb.debian.org/debian forky/main amd64 gpg amd64 2.4.8-4 [639 kB] Get: 219 http://deb.debian.org/debian forky/main amd64 pinentry-curses amd64 1.3.2-3 [87.8 kB] Get: 220 http://deb.debian.org/debian forky/main amd64 gpg-agent amd64 2.4.8-4 [273 kB] Get: 221 http://deb.debian.org/debian forky/main amd64 libfile-dirlist-perl all 0.05-3 [7600 B] Get: 222 http://deb.debian.org/debian forky/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 223 http://deb.debian.org/debian forky/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get: 224 http://deb.debian.org/debian forky/main amd64 libfile-touch-perl all 0.12-2 [8816 B] Get: 225 http://deb.debian.org/debian forky/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get: 226 http://deb.debian.org/debian forky/main amd64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB] Get: 227 http://deb.debian.org/debian forky/main amd64 libclass-xsaccessor-perl amd64 1.19-4+b5 [36.1 kB] Get: 228 http://deb.debian.org/debian forky/main amd64 libb-hooks-op-check-perl amd64 0.22-3+b2 [10.6 kB] Get: 229 http://deb.debian.org/debian forky/main amd64 libdynaloader-functions-perl all 0.004-2 [12.2 kB] Get: 230 http://deb.debian.org/debian forky/main amd64 libdevel-callchecker-perl amd64 0.009-2 [15.6 kB] Get: 231 http://deb.debian.org/debian forky/main amd64 libparams-classify-perl amd64 0.015-2+b4 [22.5 kB] Get: 232 http://deb.debian.org/debian forky/main amd64 libmodule-runtime-perl all 0.018-1 [17.8 kB] Get: 233 http://deb.debian.org/debian forky/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get: 234 http://deb.debian.org/debian forky/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get: 235 http://deb.debian.org/debian forky/main amd64 libsub-quote-perl all 2.006009-1 [21.3 kB] Get: 236 http://deb.debian.org/debian forky/main amd64 libmoo-perl all 2.005005-1 [58.0 kB] Get: 237 http://deb.debian.org/debian forky/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 238 http://deb.debian.org/debian forky/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 239 http://deb.debian.org/debian forky/main amd64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 240 http://deb.debian.org/debian forky/main amd64 libfile-listing-perl all 6.16-1 [12.4 kB] Get: 241 http://deb.debian.org/debian forky/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get: 242 http://deb.debian.org/debian forky/main amd64 liburi-perl all 5.30-1 [105 kB] Get: 243 http://deb.debian.org/debian forky/main amd64 libhtml-parser-perl amd64 3.83-1+b2 [99.7 kB] Get: 244 http://deb.debian.org/debian forky/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get: 245 http://deb.debian.org/debian forky/main amd64 libclone-perl amd64 0.47-1+b1 [13.9 kB] Get: 246 http://deb.debian.org/debian forky/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get: 247 http://deb.debian.org/debian forky/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 248 http://deb.debian.org/debian forky/main amd64 libhttp-message-perl all 7.01-1 [80.0 kB] Get: 249 http://deb.debian.org/debian forky/main amd64 libhttp-cookies-perl all 6.11-1 [19.1 kB] Get: 250 http://deb.debian.org/debian forky/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get: 251 http://deb.debian.org/debian forky/main amd64 perl-openssl-defaults amd64 7+b2 [6724 B] Get: 252 http://deb.debian.org/debian forky/main amd64 libnet-ssleay-perl amd64 1.94-3 [339 kB] Get: 253 http://deb.debian.org/debian forky/main amd64 libio-socket-ssl-perl all 2.095-1 [226 kB] Get: 254 http://deb.debian.org/debian forky/main amd64 libnet-http-perl all 6.24-1 [23.2 kB] Get: 255 http://deb.debian.org/debian forky/main amd64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB] Get: 256 http://deb.debian.org/debian forky/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 257 http://deb.debian.org/debian forky/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get: 258 http://deb.debian.org/debian forky/main amd64 libwww-perl all 6.81-1 [186 kB] Get: 259 http://deb.debian.org/debian forky/main amd64 patchutils amd64 0.4.3-1 [79.1 kB] Get: 260 http://deb.debian.org/debian forky/main amd64 rsopv amd64 0.6.4-1 [1385 kB] Get: 261 http://deb.debian.org/debian forky/main amd64 wdiff amd64 1.2.2-9 [122 kB] Get: 262 http://deb.debian.org/debian forky/main amd64 devscripts all 2.25.22 [1046 kB] Get: 263 http://deb.debian.org/debian forky/main amd64 fastjar amd64 2:0.98-7 [80.1 kB] Get: 264 http://deb.debian.org/debian forky/main amd64 libgfortran5 amd64 15.2.0-7 [862 kB] Get: 265 http://deb.debian.org/debian forky/main amd64 libgfortran-15-dev amd64 15.2.0-7 [886 kB] Get: 266 http://deb.debian.org/debian forky/main amd64 gfortran-15-x86-64-linux-gnu amd64 15.2.0-7 [12.7 MB] Get: 267 http://deb.debian.org/debian forky/main amd64 gfortran-15 amd64 15.2.0-7 [18.0 kB] Get: 268 http://deb.debian.org/debian forky/main amd64 libnl-3-200 amd64 3.11.0-2 [67.1 kB] Get: 269 http://deb.debian.org/debian forky/main amd64 libnl-route-3-200 amd64 3.11.0-2 [211 kB] Get: 270 http://deb.debian.org/debian forky/main amd64 libibverbs1 amd64 56.1-1+b1 [63.0 kB] Get: 271 http://deb.debian.org/debian forky/main amd64 ibverbs-providers amd64 56.1-1+b1 [361 kB] Get: 272 http://deb.debian.org/debian forky/main amd64 jarwrapper all 0.81 [9784 B] Get: 273 http://deb.debian.org/debian forky/main amd64 javahelper all 0.81 [79.4 kB] Get: 274 http://deb.debian.org/debian forky/main amd64 libhamcrest-java all 2.2-2 [121 kB] Get: 275 http://deb.debian.org/debian forky/main amd64 junit4 all 4.13.2-5 [350 kB] Get: 276 http://deb.debian.org/debian forky/main amd64 libapiguardian-java all 1.1.2-1 [4656 B] Get: 277 http://deb.debian.org/debian forky/main amd64 libopentest4j-java all 1.2.0-4 [9516 B] Get: 278 http://deb.debian.org/debian forky/main amd64 libopentest4j-reporting-java all 0.1.0-M1-2 [49.0 kB] Get: 279 http://deb.debian.org/debian forky/main amd64 libpicocli-java all 4.6.2-2 [390 kB] Get: 280 http://deb.debian.org/debian forky/main amd64 libunivocity-parsers-java all 2.9.1-1 [397 kB] Get: 281 http://deb.debian.org/debian forky/main amd64 junit5 all 5.10.3-1 [2459 kB] Get: 282 http://deb.debian.org/debian forky/main amd64 libgssrpc4t64 amd64 1.21.3-5 [60.0 kB] Get: 283 http://deb.debian.org/debian forky/main amd64 libkadm5clnt-mit12 amd64 1.21.3-5 [42.5 kB] Get: 284 http://deb.debian.org/debian forky/main amd64 libkdb5-10t64 amd64 1.21.3-5 [42.6 kB] Get: 285 http://deb.debian.org/debian forky/main amd64 libkadm5srv-mit12 amd64 1.21.3-5 [54.2 kB] Get: 286 http://deb.debian.org/debian forky/main amd64 krb5-multidev amd64 1.21.3-5 [126 kB] Get: 287 http://deb.debian.org/debian forky/main amd64 libllvm17t64 amd64 1:17.0.6-22+b3 [23.6 MB] Get: 288 http://deb.debian.org/debian forky/main amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3+b2 [13.0 MB] Get: 289 http://deb.debian.org/debian forky/main amd64 libnuma1 amd64 2.0.19-1 [22.2 kB] Get: 290 http://deb.debian.org/debian forky/main amd64 libhsakmt1 amd64 6.2.4+ds-1 [61.1 kB] Get: 291 http://deb.debian.org/debian forky/main amd64 libhsa-runtime64-1 amd64 6.1.2-3 [535 kB] Get: 292 http://deb.debian.org/debian forky/main amd64 libamdhip64-5 amd64 5.7.1-7 [8938 kB] Get: 293 http://deb.debian.org/debian forky/main amd64 libaopalliance-java all 20070526-7 [8572 B] Get: 294 http://deb.debian.org/debian forky/main amd64 libapache-pom-java all 33-2 [5852 B] Get: 295 http://deb.debian.org/debian forky/main amd64 libasm-java all 9.8-2 [391 kB] Get: 296 http://deb.debian.org/debian forky/main amd64 libatinject-jsr330-api-java all 1.0+ds1-6 [5112 B] Get: 297 http://deb.debian.org/debian forky/main amd64 libbrotli-dev amd64 1.1.0-2+b7 [316 kB] Get: 298 http://deb.debian.org/debian forky/main amd64 libbsh-java all 2.0b4-20 [291 kB] Get: 299 http://deb.debian.org/debian forky/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get: 300 http://deb.debian.org/debian forky/main amd64 libcommons-io-java all 2.19.0-1 [524 kB] Get: 301 http://deb.debian.org/debian forky/main amd64 libslf4j-java all 1.7.32-2 [142 kB] Get: 302 http://deb.debian.org/debian forky/main amd64 libmaven-shared-utils-java all 3.4.2-1 [137 kB] Get: 303 http://deb.debian.org/debian forky/main amd64 libcommons-cli-java all 1.6.0-1 [60.4 kB] Get: 304 http://deb.debian.org/debian forky/main amd64 libgeronimo-annotation-1.3-spec-java all 1.3-1 [11.1 kB] Get: 305 http://deb.debian.org/debian forky/main amd64 liberror-prone-java all 2.18.0-1 [22.5 kB] Get: 306 http://deb.debian.org/debian forky/main amd64 libjsr305-java all 0.1~+svn49-12 [26.6 kB] Get: 307 http://deb.debian.org/debian forky/main amd64 libguava-java all 32.0.1-1 [2708 kB] Get: 308 http://deb.debian.org/debian forky/main amd64 libguice-java all 5.1.0-1 [932 kB] Get: 309 http://deb.debian.org/debian forky/main amd64 libmaven-parent-java all 43-2 [6252 B] Get: 310 http://deb.debian.org/debian forky/main amd64 libcommons-lang3-java all 3.17.0-2 [641 kB] Get: 311 http://deb.debian.org/debian forky/main amd64 libplexus-utils2-java all 3.4.2-1 [258 kB] Get: 312 http://deb.debian.org/debian forky/main amd64 libwagon-provider-api-java all 3.5.3-2 [48.3 kB] Get: 313 http://deb.debian.org/debian forky/main amd64 libmaven-resolver-java all 1.9.22-1 [729 kB] Get: 314 http://deb.debian.org/debian forky/main amd64 libplexus-cipher-java all 2.0-1 [14.9 kB] Get: 315 http://deb.debian.org/debian forky/main amd64 libplexus-classworlds-java all 2.7.0-1 [50.6 kB] Get: 316 http://deb.debian.org/debian forky/main amd64 libplexus-component-annotations-java all 2.1.1-1 [7660 B] Get: 317 http://deb.debian.org/debian forky/main amd64 libplexus-interpolation-java all 1.27-1 [76.8 kB] Get: 318 http://deb.debian.org/debian forky/main amd64 libplexus-sec-dispatcher-java all 2.0-3 [28.3 kB] Get: 319 http://deb.debian.org/debian forky/main amd64 libgeronimo-interceptor-3.0-spec-java all 1.0.1-5 [8444 B] Get: 320 http://deb.debian.org/debian forky/main amd64 libcdi-api-java all 1.2-4 [55.3 kB] Get: 321 http://deb.debian.org/debian forky/main amd64 libsisu-inject-java all 0.3.5-1 [352 kB] Get: 322 http://deb.debian.org/debian forky/main amd64 libsisu-plexus-java all 0.3.5-1 [183 kB] Get: 323 http://deb.debian.org/debian forky/main amd64 libmaven3-core-java all 3.9.9-1 [1661 kB] Get: 324 http://deb.debian.org/debian forky/main amd64 libmaven-shared-io-java all 3.0.0-4 [33.2 kB] Get: 325 http://deb.debian.org/debian forky/main amd64 libmaven-file-management-java all 3.0.0-2 [35.1 kB] Get: 326 http://deb.debian.org/debian forky/main amd64 libbuild-helper-maven-plugin-java all 3.3.0-1 [59.5 kB] Get: 327 http://deb.debian.org/debian forky/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] Get: 328 http://deb.debian.org/debian forky/main amd64 libcatch2-dev amd64 3.7.1-0.6 [646 kB] Get: 329 http://deb.debian.org/debian forky/main amd64 libcommons-collections3-java all 3.2.2-3 [530 kB] Get: 330 http://deb.debian.org/debian forky/main amd64 libcommons-logging-java all 1.3.0-2 [68.6 kB] Get: 331 http://deb.debian.org/debian forky/main amd64 libcommons-beanutils-java all 1.10.1-1.1 [231 kB] Get: 332 http://deb.debian.org/debian forky/main amd64 libcommons-codec-java all 1.18.0-1 [304 kB] Get: 333 http://deb.debian.org/debian forky/main amd64 libcommons-collections4-java all 4.4-2 [682 kB] Get: 334 http://deb.debian.org/debian forky/main amd64 libcommons-compress-java all 1.27.1-2 [641 kB] Get: 335 http://deb.debian.org/debian forky/main amd64 libcommons-digester-java all 1.8.1-7 [138 kB] Get: 336 http://deb.debian.org/debian forky/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get: 337 http://deb.debian.org/debian forky/main amd64 libcommons-lang-java all 2.6-12 [273 kB] Get: 338 http://deb.debian.org/debian forky/main amd64 libplexus-io-java all 3.3.1-2 [65.3 kB] Get: 339 http://deb.debian.org/debian forky/main amd64 libsnappy1v5 amd64 1.2.2-2 [30.7 kB] Get: 340 http://deb.debian.org/debian forky/main amd64 libsnappy-jni amd64 1.1.10.8-1 [6548 B] Get: 341 http://deb.debian.org/debian forky/main amd64 libsnappy-java all 1.1.10.8-1 [87.8 kB] Get: 342 http://deb.debian.org/debian forky/main amd64 libxz-java all 1.9-1 [143 kB] Get: 343 http://deb.debian.org/debian forky/main amd64 libplexus-archiver-java all 4.6.1-1 [187 kB] Get: 344 http://deb.debian.org/debian forky/main amd64 libmaven-archiver-java all 3.6.2-1 [26.1 kB] Get: 345 http://deb.debian.org/debian forky/main amd64 libmaven-jar-plugin-java all 3.3.0-2 [24.0 kB] Get: 346 http://deb.debian.org/debian forky/main amd64 libcommons-text-java all 1.13.1-1 [228 kB] Get: 347 http://deb.debian.org/debian forky/main amd64 sgml-base all 1.31+nmu1 [10.9 kB] Get: 348 http://deb.debian.org/debian forky/main amd64 libcommons-validator-java all 1:1.9.0-1 [191 kB] Get: 349 http://deb.debian.org/debian forky/main amd64 libidn2-dev amd64 2.3.8-4 [103 kB] Get: 350 http://deb.debian.org/debian forky/main amd64 libkrb5-dev amd64 1.21.3-5 [16.1 kB] Get: 351 http://deb.debian.org/debian forky/main amd64 libldap-dev amd64 2.6.10+dfsg-1 [312 kB] Get: 352 http://deb.debian.org/debian forky/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 353 http://deb.debian.org/debian forky/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 354 http://deb.debian.org/debian forky/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 355 http://deb.debian.org/debian forky/main amd64 libnghttp2-dev amd64 1.64.0-1.1+b1 [117 kB] Get: 356 http://deb.debian.org/debian forky/main amd64 libnghttp3-dev amd64 1.12.0-1 [95.5 kB] Get: 357 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-ossl-dev amd64 1.16.0-1 [28.4 kB] Get: 358 http://deb.debian.org/debian forky/main amd64 libngtcp2-dev amd64 1.16.0-1 [193 kB] Get: 359 http://deb.debian.org/debian forky/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get: 360 http://deb.debian.org/debian forky/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-5 [330 kB] Get: 361 http://deb.debian.org/debian forky/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-5 [658 kB] Get: 362 http://deb.debian.org/debian forky/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get: 363 http://deb.debian.org/debian forky/main amd64 libunbound8 amd64 1.24.1-1 [615 kB] Get: 364 http://deb.debian.org/debian forky/main amd64 libgnutls-dane0t64 amd64 3.8.10-3 [458 kB] Get: 365 http://deb.debian.org/debian forky/main amd64 libgnutls-openssl27t64 amd64 3.8.10-3 [458 kB] Get: 366 http://deb.debian.org/debian forky/main amd64 libp11-kit-dev amd64 0.25.9-2 [220 kB] Get: 367 http://deb.debian.org/debian forky/main amd64 libtasn1-6-dev amd64 4.20.0-2 [99.2 kB] Get: 368 http://deb.debian.org/debian forky/main amd64 nettle-dev amd64 3.10.2-1 [1322 kB] Get: 369 http://deb.debian.org/debian forky/main amd64 libgnutls28-dev amd64 3.8.10-3 [1431 kB] Get: 370 http://deb.debian.org/debian forky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 371 http://deb.debian.org/debian forky/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-3 [67.9 kB] Get: 372 http://deb.debian.org/debian forky/main amd64 libssl-dev amd64 3.5.4-1 [2980 kB] Get: 373 http://deb.debian.org/debian forky/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get: 374 http://deb.debian.org/debian forky/main amd64 libzstd-dev amd64 1.5.7+dfsg-2 [375 kB] Get: 375 http://deb.debian.org/debian forky/main amd64 libcurl4-openssl-dev amd64 8.17.0~rc2-1 [530 kB] Get: 376 http://deb.debian.org/debian forky/main amd64 libcurlpp0t64 amd64 0.8.1-6 [28.3 kB] Get: 377 http://deb.debian.org/debian forky/main amd64 libcurlpp-dev amd64 0.8.1-6 [59.7 kB] Get: 378 http://deb.debian.org/debian forky/main amd64 libjaxen-java all 1.2.0-1 [214 kB] Get: 379 http://deb.debian.org/debian forky/main amd64 libdom4j-java all 2.1.4-1 [312 kB] Get: 380 http://deb.debian.org/debian forky/main amd64 libdoxia-core-java all 2.0.0-1 [149 kB] Get: 381 http://deb.debian.org/debian forky/main amd64 libplexus-xml-java all 3.0.1-2 [93.7 kB] Get: 382 http://deb.debian.org/debian forky/main amd64 libdoxia-java all 2.0.0-1 [113 kB] Get: 383 http://deb.debian.org/debian forky/main amd64 libmaven-reporting-api-java all 4.0.0-1 [6724 B] Get: 384 http://deb.debian.org/debian forky/main amd64 libxbean-reflect-java all 4.5-9 [132 kB] Get: 385 http://deb.debian.org/debian forky/main amd64 libplexus-container-default-java all 2.1.1-1 [193 kB] Get: 386 http://deb.debian.org/debian forky/main amd64 libplexus-i18n-java all 1.0-beta-10-6 [13.4 kB] Get: 387 http://deb.debian.org/debian forky/main amd64 velocity all 1.7-7 [431 kB] Get: 388 http://deb.debian.org/debian forky/main amd64 libplexus-velocity-java all 1.2-4 [9676 B] Get: 389 http://deb.debian.org/debian forky/main amd64 liboro-java all 2.0.8a-15 [69.3 kB] Get: 390 http://deb.debian.org/debian forky/main amd64 libvelocity-tools-java all 2.0-9 [311 kB] Get: 391 http://deb.debian.org/debian forky/main amd64 libdoxia-sitetools-java all 2.0.0-1 [176 kB] Get: 392 http://deb.debian.org/debian forky/main amd64 libel-api-java all 3.0.0-3 [64.9 kB] Get: 393 http://deb.debian.org/debian forky/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b1 [132 kB] Get: 394 http://deb.debian.org/debian forky/main amd64 libevent-extra-2.1-7t64 amd64 2.1.12-stable-10+b1 [108 kB] Get: 395 http://deb.debian.org/debian forky/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10+b1 [54.3 kB] Get: 396 http://deb.debian.org/debian forky/main amd64 libevent-openssl-2.1-7t64 amd64 2.1.12-stable-10+b1 [61.1 kB] Get: 397 http://deb.debian.org/debian forky/main amd64 libevent-dev amd64 2.1.12-stable-10+b1 [305 kB] Get: 398 http://deb.debian.org/debian forky/main amd64 libezmorph-java all 1.0.6-4 [75.9 kB] Get: 399 http://deb.debian.org/debian forky/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB] Get: 400 http://deb.debian.org/debian forky/main amd64 librdmacm1t64 amd64 56.1-1+b1 [71.0 kB] Get: 401 http://deb.debian.org/debian forky/main amd64 libfabric1 amd64 2.1.0-1.1 [706 kB] Get: 402 http://deb.debian.org/debian forky/main amd64 libfmt10 amd64 10.1.1+ds1-4 [127 kB] Get: 403 http://deb.debian.org/debian forky/main amd64 libfmt-dev amd64 10.1.1+ds1-4 [177 kB] Get: 404 http://deb.debian.org/debian forky/main amd64 libgetopt-java all 1.0.14+dfsg-6 [25.7 kB] Get: 405 http://deb.debian.org/debian forky/main amd64 libgoogle-gson-java all 2.10.1-1 [262 kB] Get: 406 http://deb.debian.org/debian forky/main amd64 libxml-commons-external-java all 1.4.01-6 [240 kB] Get: 407 http://deb.debian.org/debian forky/main amd64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get: 408 http://deb.debian.org/debian forky/main amd64 libxerces2-java all 2.12.2-1 [1440 kB] Get: 409 http://deb.debian.org/debian forky/main amd64 libxom-java all 1.3.9-1 [174 kB] Get: 410 http://deb.debian.org/debian forky/main amd64 libjson-java all 3.2.0+dfsg-2 [142 kB] Get: 411 http://deb.debian.org/debian forky/main amd64 libmbedcrypto16 amd64 3.6.4-2 [360 kB] Get: 412 http://deb.debian.org/debian forky/main amd64 libmbedx509-7 amd64 3.6.4-2 [151 kB] Get: 413 http://deb.debian.org/debian forky/main amd64 libmbedtls21 amd64 3.6.4-2 [242 kB] Get: 414 http://deb.debian.org/debian forky/main amd64 ncbi-vdb-data all 3.2.1+dfsg-2 [88.5 kB] Get: 415 http://deb.debian.org/debian forky/main amd64 libncbi-vdb3 amd64 3.2.1+dfsg-2 [1164 kB] Get: 416 http://deb.debian.org/debian forky/main amd64 libncbi-ngs3 amd64 3.2.1+dfsg-5 [159 kB] Get: 417 http://deb.debian.org/debian forky/main amd64 libngs-jni amd64 3.2.1+dfsg-5 [27.8 kB] Get: 418 http://deb.debian.org/debian forky/main amd64 libngs-java amd64 3.2.1+dfsg-5 [114 kB] Get: 419 http://deb.debian.org/debian forky/main amd64 librhino-java all 1.7.15-1 [1382 kB] Get: 420 http://deb.debian.org/debian forky/main amd64 libhtsjdk-java all 4.1.3+dfsg-2 [1841 kB] Get: 421 http://deb.debian.org/debian forky/main amd64 libhttpcore-java all 4.4.16-1 [636 kB] Get: 422 http://deb.debian.org/debian forky/main amd64 libhttpclient-java all 4.5.14-1 [1247 kB] Get: 423 http://deb.debian.org/debian forky/main amd64 libhwloc15 amd64 2.12.2-1 [164 kB] Get: 424 http://deb.debian.org/debian forky/main amd64 libnuma-dev amd64 2.0.19-1 [36.5 kB] Get: 425 http://deb.debian.org/debian forky/main amd64 libltdl7 amd64 2.5.4-7 [416 kB] Get: 426 http://deb.debian.org/debian forky/main amd64 libltdl-dev amd64 2.5.4-7 [168 kB] Get: 427 http://deb.debian.org/debian forky/main amd64 libhwloc-dev amd64 2.12.2-1 [257 kB] Get: 428 http://deb.debian.org/debian forky/main amd64 libxnvctrl0 amd64 535.171.04-1+b2 [14.2 kB] Get: 429 http://deb.debian.org/debian forky/main amd64 libze1 amd64 1.24.1-2 [514 kB] Get: 430 http://deb.debian.org/debian forky/main amd64 ocl-icd-libopencl1 amd64 2.3.4-1 [43.0 kB] Get: 431 http://deb.debian.org/debian forky/main amd64 libhwloc-plugins amd64 2.12.2-1 [23.5 kB] Get: 432 http://deb.debian.org/debian forky/main amd64 libibumad3 amd64 56.1-1+b1 [30.1 kB] Get: 433 http://deb.debian.org/debian forky/main amd64 libibmad5 amd64 56.1-1+b1 [44.9 kB] Get: 434 http://deb.debian.org/debian forky/main amd64 libnl-3-dev amd64 3.11.0-2 [110 kB] Get: 435 http://deb.debian.org/debian forky/main amd64 libnl-route-3-dev amd64 3.11.0-2 [235 kB] Get: 436 http://deb.debian.org/debian forky/main amd64 libibverbs-dev amd64 56.1-1+b1 [659 kB] Get: 437 http://deb.debian.org/debian forky/main amd64 libjansi-java all 2.4.1-2 [100 kB] Get: 438 http://deb.debian.org/debian forky/main amd64 libjcommander-java all 1.71-4 [73.0 kB] Get: 439 http://deb.debian.org/debian forky/main amd64 libjsp-api-java all 2.3.4-3 [53.7 kB] Get: 440 http://deb.debian.org/debian forky/main amd64 libservlet-api-java all 4.0.1-2 [81.0 kB] Get: 441 http://deb.debian.org/debian forky/main amd64 libwebsocket-api-java all 1.1-2 [40.1 kB] Get: 442 http://deb.debian.org/debian forky/main amd64 libjetty9-java all 9.4.57-1.1 [2965 kB] Get: 443 http://deb.debian.org/debian forky/main amd64 libjs-jquery all 3.7.1+dfsg+~3.5.33-1 [319 kB] Get: 444 http://deb.debian.org/debian forky/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 445 http://deb.debian.org/debian forky/main amd64 libjson-simple-java all 2.3.0-2 [61.7 kB] Get: 446 http://deb.debian.org/debian forky/main amd64 libjsoup-java all 1.15.3-1 [431 kB] Get: 447 http://deb.debian.org/debian forky/main amd64 libjtidy-java all 7+svn20110807-6 [251 kB] Get: 448 http://deb.debian.org/debian forky/main amd64 liblightcouch-java all 0.2.0-1 [75.0 kB] Get: 449 http://deb.debian.org/debian forky/main amd64 libmongodb-java all 3.6.3-2 [1901 kB] Get: 450 http://deb.debian.org/debian forky/main amd64 liblog4j2-java all 2.19.0-2 [2310 kB] Get: 451 http://deb.debian.org/debian forky/main amd64 liblzma-dev amd64 5.8.1-2 [349 kB] Get: 452 http://deb.debian.org/debian forky/main amd64 libmaven-antrun-plugin-java all 3.1.0-1 [36.9 kB] Get: 453 http://deb.debian.org/debian forky/main amd64 libmaven-clean-plugin-java all 3.2.0-2 [32.2 kB] Get: 454 http://deb.debian.org/debian forky/main amd64 libmaven-common-artifact-filters-java all 3.4.0-1 [47.7 kB] Get: 455 http://deb.debian.org/debian forky/main amd64 libmaven-shared-incremental-java all 1.1-6 [9916 B] Get: 456 http://deb.debian.org/debian forky/main amd64 libplexus-compiler-java all 2.13.0-1 [99.5 kB] Get: 457 http://deb.debian.org/debian forky/main amd64 libqdox2-java all 2.0.3-1 [296 kB] Get: 458 http://deb.debian.org/debian forky/main amd64 libplexus-languages-java all 1.1.1-3 [47.8 kB] Get: 459 http://deb.debian.org/debian forky/main amd64 libmaven-compiler-plugin-java all 3.13.0-1 [78.8 kB] Get: 460 http://deb.debian.org/debian forky/main amd64 libplexus-build-api-java all 0.0.7-4 [10.3 kB] Get: 461 http://deb.debian.org/debian forky/main amd64 libmaven-filtering-java all 3.4.0-1 [51.4 kB] Get: 462 http://deb.debian.org/debian forky/main amd64 libplexus-ant-factory-java all 1.0~alpha2.1-5 [11.7 kB] Get: 463 http://deb.debian.org/debian forky/main amd64 libplexus-container-default1.5-java all 2.1.1-1 [4476 B] Get: 464 http://deb.debian.org/debian forky/main amd64 libplexus-bsh-factory-java all 1.0~alpha7-5 [8360 B] Get: 465 http://deb.debian.org/debian forky/main amd64 libmaven-plugin-tools-java all 3.10.2-2 [245 kB] Get: 466 http://deb.debian.org/debian forky/main amd64 libmaven-reporting-exec-java all 2.0.0-1 [23.9 kB] Get: 467 http://deb.debian.org/debian forky/main amd64 libmaven-reporting-impl-java all 4.0.0-1 [17.6 kB] Get: 468 http://deb.debian.org/debian forky/main amd64 libmaven-resources-plugin-java all 3.3.1-1 [27.5 kB] Get: 469 http://deb.debian.org/debian forky/main amd64 libmaven-site-plugin-java all 3.21.0-1 [106 kB] Get: 470 http://deb.debian.org/debian forky/main amd64 libmunge2 amd64 0.5.16-1 [19.7 kB] Get: 471 http://deb.debian.org/debian forky/main amd64 libmuparserx4.0.12 amd64 4.0.12-2 [198 kB] Get: 472 http://deb.debian.org/debian forky/main amd64 libmuparserx-dev amd64 4.0.12-2 [38.5 kB] Get: 473 http://deb.debian.org/debian forky/main amd64 libpmix2t64 amd64 6.0.0+really5.0.8-1 [668 kB] Get: 474 http://deb.debian.org/debian forky/main amd64 libucx0 amd64 1.19.0+ds-1 [1336 kB] Get: 475 http://deb.debian.org/debian forky/main amd64 libopenmpi40 amd64 5.0.8-10+b1 [2414 kB] Get: 476 http://deb.debian.org/debian forky/main amd64 openmpi-common all 5.0.8-10 [97.5 kB] Get: 477 http://deb.debian.org/debian forky/main amd64 openmpi-bin amd64 5.0.8-10+b1 [190 kB] Get: 478 http://deb.debian.org/debian forky/main amd64 libopenmpi-dev amd64 5.0.8-10+b1 [1090 kB] Get: 479 http://deb.debian.org/debian forky/main amd64 libprotobuf32t64 amd64 3.21.12-14 [988 kB] Get: 480 http://deb.debian.org/debian forky/main amd64 libprotobuf-lite32t64 amd64 3.21.12-14 [281 kB] Get: 481 http://deb.debian.org/debian forky/main amd64 libprotobuf-dev amd64 3.21.12-14 [1338 kB] Get: 482 http://deb.debian.org/debian forky/main amd64 libprotobuf-java all 3.21.12-14 [1268 kB] Get: 483 http://deb.debian.org/debian forky/main amd64 libprotoc32t64 amd64 3.21.12-14 [938 kB] Get: 484 http://deb.debian.org/debian forky/main amd64 libspdlog1.15 amd64 1:1.15.3+ds-1 [109 kB] Get: 485 http://deb.debian.org/debian forky/main amd64 libspdlog-dev amd64 1:1.15.3+ds-1 [91.9 kB] Get: 486 http://deb.debian.org/debian forky/main amd64 libsurefire-java all 2.22.3-4 [1391 kB] Get: 487 http://deb.debian.org/debian forky/main amd64 libwagon-file-java all 3.5.3-2 [8452 B] Get: 488 http://deb.debian.org/debian forky/main amd64 libwagon-http-java all 3.5.3-2 [49.6 kB] Get: 489 http://deb.debian.org/debian forky/main amd64 libxml2-utils amd64 2.14.6+dfsg-0.1 [123 kB] Get: 490 http://deb.debian.org/debian forky/main amd64 maven all 3.9.9-1 [19.7 kB] Get: 491 http://deb.debian.org/debian forky/main amd64 maven-repo-helper all 1.12 [136 kB] Get: 492 http://deb.debian.org/debian forky/main amd64 unzip amd64 6.0-29 [173 kB] Get: 493 http://deb.debian.org/debian forky/main amd64 maven-debian-helper all 2.6.9 [104 kB] Get: 494 http://deb.debian.org/debian forky/main amd64 mpi-default-dev amd64 1.19 [3432 B] Get: 495 http://deb.debian.org/debian forky/main amd64 protobuf-compiler amd64 3.21.12-14 [85.0 kB] Get: 496 http://deb.debian.org/debian forky/main amd64 rapidjson-dev all 1.1.0+dfsg2-7.6 [98.2 kB] Get: 497 http://deb.debian.org/debian forky/main amd64 testng all 6.9.12-4 [795 kB] Get: 498 http://deb.debian.org/debian forky/main amd64 uuid-dev amd64 2.41.2-4 [49.9 kB] Fetched 390 MB in 4s (94.0 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 ... 19869 files and directories currently installed.) Preparing to unpack .../libsystemd-shared_258.1-2_amd64.deb ... Unpacking libsystemd-shared:amd64 (258.1-2) ... Setting up libsystemd-shared:amd64 (258.1-2) ... Selecting previously unselected package systemd. (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 ... 19877 files and directories currently installed.) Preparing to unpack .../systemd_258.1-2_amd64.deb ... Unpacking systemd (258.1-2) ... Setting up systemd (258.1-2) ... Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' -> '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' -> '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'. Initializing machine ID from random generator. Creating group 'systemd-journal' with GID 999. Creating group 'systemd-network' with GID 998. Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998. /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. Selecting previously unselected package systemd-sysv. (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 ... 20875 files and directories currently installed.) Preparing to unpack .../00-systemd-sysv_258.1-2_amd64.deb ... Unpacking systemd-sysv (258.1-2) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../01-libdbus-1-3_1.16.2-2_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.16.2-2) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../02-dbus-bin_1.16.2-2_amd64.deb ... Unpacking dbus-bin (1.16.2-2) ... Selecting previously unselected package dbus-session-bus-common. Preparing to unpack .../03-dbus-session-bus-common_1.16.2-2_all.deb ... Unpacking dbus-session-bus-common (1.16.2-2) ... Selecting previously unselected package libapparmor1:amd64. Preparing to unpack .../04-libapparmor1_4.1.0-1_amd64.deb ... Unpacking libapparmor1:amd64 (4.1.0-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../05-libexpat1_2.7.3-1_amd64.deb ... Unpacking libexpat1:amd64 (2.7.3-1) ... Selecting previously unselected package dbus-daemon. Preparing to unpack .../06-dbus-daemon_1.16.2-2_amd64.deb ... Unpacking dbus-daemon (1.16.2-2) ... Selecting previously unselected package dbus-system-bus-common. Preparing to unpack .../07-dbus-system-bus-common_1.16.2-2_all.deb ... Unpacking dbus-system-bus-common (1.16.2-2) ... Selecting previously unselected package dbus. Preparing to unpack .../08-dbus_1.16.2-2_amd64.deb ... Unpacking dbus (1.16.2-2) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../09-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package binfmt-support. Preparing to unpack .../10-binfmt-support_2.2.2-7_amd64.deb ... Unpacking binfmt-support (2.2.2-7) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../11-libpython3.13-minimal_3.13.9-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.9-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../12-python3.13-minimal_3.13.9-1_amd64.deb ... Unpacking python3.13-minimal (3.13.9-1) ... Setting up libpython3.13-minimal:amd64 (3.13.9-1) ... Setting up libexpat1:amd64 (2.7.3-1) ... Setting up python3.13-minimal (3.13.9-1) ... Selecting previously unselected package python3-minimal. (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 ... 21325 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.7-1_amd64.deb ... Unpacking python3-minimal (3.13.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_14.0.0_all.deb ... Unpacking media-types (14.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025b-5_all.deb ... Unpacking tzdata (2025b-5) ... Selecting previously unselected package libffi8:amd64. Preparing to unpack .../4-libffi8_3.5.2-2_amd64.deb ... Unpacking libffi8:amd64 (3.5.2-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.3-3_all.deb ... Unpacking readline-common (8.3-3) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../6-libreadline8t64_8.3-3_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.3-3) ... Selecting previously unselected package libpython3.13-stdlib:amd64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.9-1_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.9-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.9-1_amd64.deb ... Unpacking python3.13 (3.13.9-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../9-libpython3-stdlib_3.13.7-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.13.7-1) ... Setting up python3-minimal (3.13.7-1) ... Selecting previously unselected package python3. (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 ... 22340 files and directories currently installed.) Preparing to unpack .../000-python3_3.13.7-1_amd64.deb ... Unpacking python3 (3.13.7-1) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../001-libproc2-0_2%3a4.0.4-9_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-9) ... Selecting previously unselected package procps. Preparing to unpack .../002-procps_2%3a4.0.4-9_amd64.deb ... Unpacking procps (2:4.0.4-9) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package openssl. Preparing to unpack .../004-openssl_3.5.4-1_amd64.deb ... Unpacking openssl (3.5.4-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../005-ca-certificates_20250419_all.deb ... Unpacking ca-certificates (20250419) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../006-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../007-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../008-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../009-gettext-base_0.23.1-2+b1_amd64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../010-libuchardet0_0.0.8-2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../011-groff-base_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package libpam-systemd:amd64. Preparing to unpack .../012-libpam-systemd_258.1-2_amd64.deb ... Unpacking libpam-systemd:amd64 (258.1-2) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../013-bsdextrautils_2.41.2-4_amd64.deb ... Unpacking bsdextrautils (2.41.2-4) ... 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Setting up dbus (1.16.2-2) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b3) ... Setting up libp11-kit0:amd64 (0.25.9-2) ... Setting up libxinerama1:amd64 (2:1.1.4-3+b4) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ... Setting up libxrandr2:amd64 (2:1.5.4-1+b3) ... Setting up libcommons-collections4-java (4.4-2) ... Setting up libfmt-dev:amd64 (10.1.1+ds1-4) ... Setting up libspdlog1.15:amd64 (1:1.15.3+ds-1) ... Setting up libssh2-1-dev:amd64 (1.11.1-1) ... Setting up libidn2-dev:amd64 (2.3.8-4) ... Setting up libngtcp2-crypto-ossl0:amd64 (1.16.0-1) ... Setting up libcommons-lang3-java (3.17.0-2) ... Setting up libevent-extra-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up libmbedtls21:amd64 (3.6.4-2) ... Setting up libngtcp2-crypto-ossl-dev:amd64 (1.16.0-1) ... Setting up libreadline8t64:amd64 (8.3-3) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libdrm2:amd64 (2.4.127-1) ... Setting up libnl-3-dev:amd64 (3.11.0-2) ... Setting up groff-base (1.23.0-9) ... Setting up libwayland-cursor0:amd64 (1.24.0-2+b1) ... Setting up libhtml-parser-perl:amd64 (3.83-1+b2) ... Setting up gpgconf (2.4.8-4) ... Setting up libpam-systemd:amd64 (258.1-2) ... Setting up libcommons-beanutils-java (1.10.1-1.1) ... Setting up libplexus-sec-dispatcher-java (2.0-3) ... Setting up libharfbuzz0b:amd64 (12.1.0-1) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.44.4+dfsg-1) ... Setting up libhwloc-dev:amd64 (2.12.2-1) ... Setting up libsnappy-java (1.1.10.8-1) ... Setting up libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b2) ... Setting up libfontconfig1:amd64 (2.15.0-2.4) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up libwagon-file-java (3.5.3-2) ... Setting up libxml2-utils (2.14.6+dfsg-0.1) ... Setting up libcommons-codec-java (1.18.0-1) ... Setting up libpython3.13-stdlib:amd64 (3.13.9-1) ... Setting up libavahi-client3:amd64 (0.8-17) ... Setting up libio-socket-ssl-perl (2.095-1) ... Setting up gpg (2.4.8-4) ... Created symlink '/etc/systemd/user/sockets.target.wants/keyboxd.socket' -> '/usr/lib/systemd/user/keyboxd.socket'. Setting up libp11-kit-dev:amd64 (0.25.9-2) ... Setting up libpython3-stdlib:amd64 (3.13.7-1) ... Setting up libhttp-message-perl (7.01-1) ... Setting up libdrm-amdgpu1:amd64 (2.4.127-1) ... Setting up libgnutls30t64:amd64 (3.8.10-3) ... Setting up libgnutls-openssl27t64:amd64 (3.8.10-3) ... Setting up gtk-update-icon-cache (4.20.2+ds-2) ... Setting up gfortran-15-x86-64-linux-gnu (15.2.0-7) ... Setting up libnghttp2-dev:amd64 (1.64.0-1.1+b1) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up velocity (1.7-7) ... Setting up libibverbs1:amd64 (56.1-1+b1) ... Setting up fontconfig (2.15.0-2.4) ... Regenerating fonts cache... done. Setting up gpg-agent (2.4.8-4) ... Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket' -> '/usr/lib/systemd/user/gpg-agent-browser.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket' -> '/usr/lib/systemd/user/gpg-agent-extra.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket' -> '/usr/lib/systemd/user/gpg-agent-ssh.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent.socket' -> '/usr/lib/systemd/user/gpg-agent.socket'. Setting up libatk1.0-0t64:amd64 (2.58.1-1) ... Setting up openjdk-21-jre-headless:amd64 (21.0.9+10-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libxi6:amd64 (2:1.8.2-1) ... Setting up ibverbs-providers:amd64 (56.1-1+b1) ... Setting up libhttp-cookies-perl (6.11-1) ... Setting up python3.13 (3.13.9-1) ... Setting up libcommons-io-java (2.19.0-1) ... Setting up libcommons-digester-java (1.8.1-7) ... Setting up openssh-client (1:10.2p1-2) ... Created symlink '/etc/systemd/user/sockets.target.wants/ssh-agent.socket' -> '/usr/lib/systemd/user/ssh-agent.socket'. Setting up libxtst6:amd64 (2:1.2.5-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libxcursor1:amd64 (1:1.2.3-1) ... Setting up libparams-classify-perl:amd64 (0.015-2+b4) ... Setting up libpango-1.0-0:amd64 (1.56.3-2) ... Setting up libdrm-intel1:amd64 (2.4.127-1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libncbi-vdb3:amd64 (3.2.1+dfsg-2) ... Setting up libcloudproviders0:amd64 (0.3.6-3) ... Setting up python3 (3.13.7-1) ... Setting up libhwloc-plugins:amd64 (2.12.2-1) ... Setting up libspdlog-dev:amd64 (1:1.15.3+ds-1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'. Setting up libcairo2:amd64 (1.18.4-1+b1) ... Setting up libcolord2:amd64 (1.4.8-2) ... Setting up libpsl-dev:amd64 (0.21.2-1.1+b1) ... Setting up libdconf1:amd64 (0.49.0-1) ... Setting up libnl-route-3-dev:amd64 (3.11.0-2) ... Setting up libmaven-filtering-java (3.4.0-1) ... Setting up dbus-user-session (1.16.2-2) ... Setting up libmaven-resolver-java (1.9.22-1) ... Setting up libgnutls-dane0t64:amd64 (3.8.10-3) ... Setting up adwaita-icon-theme (49.0-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libmodule-runtime-perl (0.018-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libgssrpc4t64:amd64 (1.21.3-5) ... Setting up libatspi2.0-0t64:amd64 (2.58.1-1) ... Setting up libevent-dev (2.1.12-stable-10+b1) ... Setting up libpmix2t64:amd64 (6.0.0+really5.0.8-1) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up libmaven-common-artifact-filters-java (3.4.0-1) ... Setting up librdmacm1t64:amd64 (56.1-1+b1) ... Setting up liblightcouch-java (0.2.0-1) ... Setting up libwagon-http-java (3.5.3-2) ... Setting up libcairo-gobject2:amd64 (1.18.4-1+b1) ... Setting up libmaven-shared-utils-java (3.4.2-1) ... Setting up libpangoft2-1.0-0:amd64 (1.56.3-2) ... Setting up libmaven-resources-plugin-java (3.3.1-1) ... Setting up libcups2t64:amd64 (2.4.14-1) ... Setting up libhsakmt1:amd64 (6.2.4+ds-1) ... Setting up gfortran-15 (15.2.0-7) ... Setting up libpangocairo-1.0-0:amd64 (1.56.3-2) ... Setting up libkadm5clnt-mit12:amd64 (1.21.3-5) ... Setting up libgnutls28-dev:amd64 (3.8.10-3) ... Setting up libncbi-ngs3:amd64 (3.2.1+dfsg-5) ... Setting up libatk-bridge2.0-0t64:amd64 (2.58.1-1) ... Setting up libfabric1:amd64 (2.1.0-1.1) ... Setting up mesa-libgallium:amd64 (25.2.5-1) ... Setting up libngs-jni:amd64 (3.2.1+dfsg-5) ... Setting up libplexus-io-java (3.3.1-2) ... Setting up libcommons-compress-java (1.27.1-2) ... Setting up libcurl4t64:amd64 (8.17.0~rc2-1) ... Setting up libkdb5-10t64:amd64 (1.21.3-5) ... Setting up libcommons-validator-java (1:1.9.0-1) ... Setting up libgbm1:amd64 (25.2.5-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up liblog4j2-java (2.19.0-2) ... Setting up libcurlpp0t64:amd64 (0.8.1-6) ... Setting up libgl1-mesa-dri:amd64 (25.2.5-1) ... Setting up debhelper (13.28) ... Setting up dconf-service (0.49.0-1) ... Setting up libibverbs-dev:amd64 (56.1-1+b1) ... Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libmaven-clean-plugin-java (3.2.0-2) ... Setting up libhsa-runtime64-1:amd64 (6.1.2-3) ... Setting up libkadm5srv-mit12:amd64 (1.21.3-5) ... Setting up cmake (4.1.1+really3.31.6-2) ... Setting up libplexus-archiver-java (4.6.1-1) ... Setting up libngs-java:amd64 (3.2.1+dfsg-5) ... Setting up krb5-multidev:amd64 (1.21.3-5) ... Setting up libglx-mesa0:amd64 (25.2.5-1) ... Setting up libglx0:amd64 (1.7.0-1+b2) ... Setting up dconf-gsettings-backend:amd64 (0.49.0-1) ... Setting up libmaven-archiver-java (3.6.2-1) ... Setting up libkrb5-dev:amd64 (1.21.3-5) ... Setting up libgl1:amd64 (1.7.0-1+b2) ... Setting up libamdhip64-5:amd64 (5.7.1-7) ... Setting up libcurl4-openssl-dev:amd64 (8.17.0~rc2-1) ... Setting up libcurlpp-dev:amd64 (0.8.1-6) ... Setting up libgtk-3-common (3.24.51-1) ... Setting up libucx0:amd64 (1.19.0+ds-1) ... Setting up libgtk-3-0t64:amd64 (3.24.51-1) ... Setting up libopenmpi40:amd64 (5.0.8-10+b1) ... Setting up openmpi-bin (5.0.8-10+b1) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/mpiexec.1.gz because associated file /usr/share/man/man1/mpiexec.openmpi.1.gz (of link group mpirun) doesn't exist update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up libopenmpi-dev:amd64 (5.0.8-10+b1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openmpi/include to provide /usr/include/x86_64-linux-gnu/mpi (mpi-x86_64-linux-gnu) in auto mode Setting up mpi-default-dev (1.19) ... Setting up liberror-prone-java (2.18.0-1) ... Setting up libwww-perl (6.81-1) ... Setting up devscripts (2.25.22) ... Setting up libguava-java (32.0.1-1) ... Setting up javahelper (0.81) ... Setting up libprotobuf-java (3.21.12-14) ... Setting up libplexus-container-default-java (2.1.1-1) ... Setting up liblwp-protocol-https-perl (6.14-1) ... Setting up libguice-java (5.1.0-1) ... Setting up libplexus-i18n-java (1.0-beta-10-6) ... Setting up libplexus-container-default1.5-java (2.1.1-1) ... Setting up libplexus-velocity-java (1.2-4) ... Setting up libmaven3-core-java (3.9.9-1) ... Setting up libmaven-shared-incremental-java (1.1-6) ... Setting up libmaven-shared-io-java (3.0.0-4) ... Setting up libplexus-bsh-factory-java (1.0~alpha7-5) ... Setting up libplexus-compiler-java (2.13.0-1) ... Setting up libmaven-compiler-plugin-java (3.13.0-1) ... Setting up libmaven-file-management-java (3.0.0-2) ... Setting up libbuild-helper-maven-plugin-java (3.3.0-1) ... Setting up libmaven-jar-plugin-java (3.3.0-2) ... Setting up libcommons-text-java (1.13.1-1) ... Setting up libdoxia-core-java (2.0.0-1) ... Setting up libdoxia-java (2.0.0-1) ... Setting up libmaven-reporting-api-java (4.0.0-1) ... Setting up libmaven-reporting-exec-java (2.0.0-1) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for systemd (258.1-2) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_BR_Root_CA_2_2023.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_2_2023.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:FIRMAPROFESIONAL_CA_ROOT-A_WEB.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_Root_CA12.pem Adding debian:SecureSign_Root_CA14.pem Adding debian:SecureSign_Root_CA15.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_CYBER_Root_CA.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:Telekom_Security_TLS_ECC_Root_2020.pem Adding debian:Telekom_Security_TLS_RSA_Root_2023.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up maven (3.9.9-1) ... update-alternatives: using /usr/share/maven/bin/mvn to provide /usr/bin/mvn (mvn) in auto mode Setting up openjdk-21-jre:amd64 (21.0.9+10-1) ... Setting up ant (1.10.15-1) ... Setting up junit4 (4.13.2-5) ... Setting up openjdk-21-jdk-headless:amd64 (21.0.9+10-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jwebserver to provide /usr/bin/jwebserver (jwebserver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre-headless (2:1.21-76) ... Setting up maven-repo-helper (1.12) ... Setting up default-jre (2:1.21-76) ... Setting up libmaven-antrun-plugin-java (3.1.0-1) ... Setting up libplexus-ant-factory-java (1.0~alpha2.1-5) ... Setting up openjdk-21-jdk:amd64 (21.0.9+10-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up default-jdk-headless (2:1.21-76) ... Setting up junit5 (5.10.3-1) ... Setting up libjson-java (3.2.0+dfsg-2) ... Setting up libhtsjdk-java (4.1.3+dfsg-2) ... Setting up libmaven-plugin-tools-java (3.10.2-2) ... Setting up default-jdk (2:1.21-76) ... Processing triggers for sgml-base (1.31+nmu1) ... Setting up libvelocity-tools-java (2.0-9) ... Setting up libdoxia-sitetools-java (2.0.0-1) ... Setting up libmaven-site-plugin-java (3.21.0-1) ... Setting up libmaven-reporting-impl-java (4.0.0-1) ... Setting up libsurefire-java (2.22.3-4) ... Setting up maven-debian-helper (2.6.9) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20240118) ... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/genomicsdb-1.5.5/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../genomicsdb_1.5.5-2_source.changes dpkg-buildpackage: info: source package genomicsdb dpkg-buildpackage: info: source version 1.5.5-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Pierre Gruet dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=cmake --with javahelper debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Removing the files we provided manually for the build of the component if [ -e genomicsdb-htslib/CMakeLists.txt ]; then rm genomicsdb-htslib/CMakeLists.txt; fi if [ -e genomicsdb-htslib/config.h ]; then rm genomicsdb-htslib/config.h; fi if [ -e genomicsdb-htslib/version.h ]; then rm genomicsdb-htslib/version.h; fi dh_auto_clean dh_auto_clean --buildsystem=maven bash -c "for dir in \$(find . -name target -type d); do if [ -f \$(echo \$dir | sed -e s/target\$/pom.xml/) ]; then rm -Rf \$dir; fi done" mh_unpatchpoms -plibgenomicsdb-java # Removing the debian/maven.properties file we setup during configure step. if [ -e debian/maven.properties ]; then rm debian/maven.properties; fi # Removing the patched pom.xml file. if [ -e pom.xml.old ]; then mv pom.xml.old pom.xml; fi make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' dh_autoreconf_clean -O--buildsystem=cmake jh_clean -O--buildsystem=cmake Duplicate specification "u=s" for option "u" dh_clean -O--buildsystem=cmake debian/rules binary dh binary --buildsystem=cmake --with javahelper dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake debian/rules override_dh_auto_configure-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Preparing the build of the htslib component. cp debian/htslibComponentFiles/* genomicsdb-htslib/ echo '#define HTS_VERSION_TEXT ""' > genomicsdb-htslib/version.h # Configuring the C++ part using CMake. dh_auto_configure -- \ -DBUILD_JAVA:BOOL=False \ -DCMAKE_INSTALL_PREFIX:PATH=/usr \ -DJAVA_HOME:PATH=/usr/lib/jvm/default-java \ -DPROTOBUF_ROOT_DIR:PATH=/usr \ -DCMAKE_LIBRARY_ARCHITECTURE:STRING=x86_64-linux-gnu cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DBUILD_JAVA:BOOL=False -DCMAKE_INSTALL_PREFIX:PATH=/usr -DJAVA_HOME:PATH=/usr/lib/jvm/default-java -DPROTOBUF_ROOT_DIR:PATH=/usr -DCMAKE_LIBRARY_ARCHITECTURE:STRING=x86_64-linux-gnu .. -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.17.0-rc2") -- Looking for lzma_auto_decoder in /usr/lib/x86_64-linux-gnu/liblzma.so -- Looking for lzma_auto_decoder in /usr/lib/x86_64-linux-gnu/liblzma.so - found -- Looking for lzma_easy_encoder in /usr/lib/x86_64-linux-gnu/liblzma.so -- Looking for lzma_easy_encoder in /usr/lib/x86_64-linux-gnu/liblzma.so - found -- Looking for lzma_lzma_preset in /usr/lib/x86_64-linux-gnu/liblzma.so -- Looking for lzma_lzma_preset in /usr/lib/x86_64-linux-gnu/liblzma.so - found -- Found LibLZMA: /usr/lib/x86_64-linux-gnu/liblzma.so (found version "5.8.1") CMake Deprecation Warning at genomicsdb-tiledb/CMakeLists.txt:29 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.1") -- Found libuuid: /usr/include -- Found OpenSSL: /usr/lib/x86_64-linux-gnu/libcrypto.so (found version "3.5.4") -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.17.0-rc2") -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- The TileDB library is compiled with verbosity. -- Found Catch2: /catch2/catch_all.hpp Version=3 -- GenomicsDB version=1.5.4 full_version=1.5.4-SNAPSHOT- -- CMAKE_BUILD_TYPE=None -- Performing Test test_cpp_2011 -- Performing Test test_cpp_2011 - Success -- Performing Test test_stack_protector_strong -- Performing Test test_stack_protector_strong - Success -- Found MPI_C: /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI_CXX: /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI: TRUE (found version "3.1") -- Performing Test OPENMPV4_FOUND -- Performing Test OPENMPV4_FOUND - Success -- Performing Test STRING_VIEW_FOUND -- Performing Test STRING_VIEW_FOUND - Success -- string_view found -- RapidJSON found. Headers: /usr/include -- Found Spdlog: /usr/include -- Try finding Protobuf Library -- Could not find libcsv headers and/or libraries (missing: LIBCSV_LIBRARY LIBCSV_INCLUDE_DIR) -- Could not find safestring headers and/or libraries (missing: SAFESTRINGLIB_INCLUDE_DIR SAFESTRINGLIB_LIBRARY) CMake Warning (dev) at src/test/cpp/CMakeLists.txt:85 (add_custom_command): The following keywords are not supported when using add_custom_command(TARGET): DEPENDS. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at src/test/cpp/CMakeLists.txt:85 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Configuring done (3.7s) -- Generating done (0.3s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' debian/rules override_dh_auto_configure-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Preparing the build of the htslib component. cp debian/htslibComponentFiles/* genomicsdb-htslib/ echo '#define HTS_VERSION_TEXT ""' > genomicsdb-htslib/version.h # Configuring the C++ part using CMake. dh_auto_configure -- \ -DBUILD_JAVA:BOOL=False \ -DCMAKE_INSTALL_PREFIX:PATH=/usr \ -DJAVA_HOME:PATH=/usr/lib/jvm/default-java \ -DPROTOBUF_ROOT_DIR:PATH=/usr \ -DCMAKE_LIBRARY_ARCHITECTURE:STRING=x86_64-linux-gnu cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DBUILD_JAVA:BOOL=False -DCMAKE_INSTALL_PREFIX:PATH=/usr -DJAVA_HOME:PATH=/usr/lib/jvm/default-java -DPROTOBUF_ROOT_DIR:PATH=/usr -DCMAKE_LIBRARY_ARCHITECTURE:STRING=x86_64-linux-gnu .. -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.17.0-rc2") CMake Deprecation Warning at genomicsdb-tiledb/CMakeLists.txt:29 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.17.0-rc2") -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- The TileDB library is compiled with verbosity. -- Found Catch2: /catch2/catch_all.hpp Version=3 -- GenomicsDB version=1.5.4 full_version=1.5.4-SNAPSHOT- -- CMAKE_BUILD_TYPE=None -- string_view found -- RapidJSON found. Headers: /usr/include -- Try finding Protobuf Library -- Could not find libcsv headers and/or libraries (missing: LIBCSV_LIBRARY LIBCSV_INCLUDE_DIR) -- Could not find safestring headers and/or libraries (missing: SAFESTRINGLIB_INCLUDE_DIR SAFESTRINGLIB_LIBRARY) CMake Warning (dev) at src/test/cpp/CMakeLists.txt:85 (add_custom_command): The following keywords are not supported when using add_custom_command(TARGET): DEPENDS. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at src/test/cpp/CMakeLists.txt:85 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Configuring done (1.5s) -- Generating done (0.9s) -- Build files have been written to: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu # Configuring the Java part using Maven. # First we put the arch triplet in d/maven.properties for the tests. echo "build.triplet=x86_64-linux-gnu" > debian/maven.properties mv pom.xml pom.xml.old sed 's/\${genomicsdb\.version}/1.5.5/; s,\${protoc\.filepath},/usr/bin/protoc,' pom.xml.old > pom.xml dh_auto_configure --buildsystem=maven skip faking of existing gnu-getopt:getopt::debian mh_patchpoms -plibgenomicsdb-java --debian-build --keep-pom-version --maven-repo=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_linkjars -O--buildsystem=cmake Duplicate specification "unlink|u" for option "u" debian/rules override_dh_auto_build-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_build cd obj-x86_64-linux-gnu && make -j40 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/depend make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/depend make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'CMakeFiles/protobuf_ep.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 0%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o [ 0%] Built target protobuf_ep [ 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/array/array_read_state.cc.o [ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o [ 2%] 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_sorted_write_state.cc.o [ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o [ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o [ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o [ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o [ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/knetfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/knetfile.c [ 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/hfile_libcurl.c.o [ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_schema.cc make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/depend [ 5%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o -MF CMakeFiles/genomicsdb-hts.dir/kstring.c.o.d -o CMakeFiles/genomicsdb-hts.dir/kstring.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/kstring.c [ 5%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_read_state.cc [ 7%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o [ 7%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o [ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o [ 7%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -MF CMakeFiles/genomicsdb-hts.dir/bgzf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/bgzf.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_sorted_write_state.cc [ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o [ 8%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/resources /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_iterator.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o -MF CMakeFiles/genomicsdb-hts.dir/header.c.o.d -o CMakeFiles/genomicsdb-hts.dir/header.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/header.c [ 10%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_sorted_read_state.cc [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o [ 10%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.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-1.5.5/genomicsdb-tiledb/core/src/array/array.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o -MF CMakeFiles/genomicsdb-hts.dir/kfunc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/kfunc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/kfunc.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_net.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_blosc.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o -MF CMakeFiles/genomicsdb-hts.dir/errmod.c.o.d -o CMakeFiles/genomicsdb-hts.dir/errmod.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/errmod.c [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/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-1.5.5/genomicsdb-htslib/bcf_sr_sort.c [ 11%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o [ 11%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o -MF CMakeFiles/genomicsdb-hts.dir/hts.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hts.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hts.c [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -MF CMakeFiles/genomicsdb-hts.dir/hts_os.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hts_os.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o -MF CMakeFiles/genomicsdb-hts.dir/md5.c.o.d -o CMakeFiles/genomicsdb-hts.dir/md5.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/md5.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o -MF CMakeFiles/genomicsdb-hts.dir/multipart.c.o.d -o CMakeFiles/genomicsdb-hts.dir/multipart.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/multipart.c [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o -MF CMakeFiles/genomicsdb-hts.dir/probaln.c.o.d -o CMakeFiles/genomicsdb-hts.dir/probaln.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/probaln.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter_bit_shuffle.cc [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o -MF CMakeFiles/genomicsdb-hts.dir/realn.c.o.d -o CMakeFiles/genomicsdb-hts.dir/realn.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/realn.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter_delta_encode.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_gzip.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_lz4.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o -MF CMakeFiles/genomicsdb-hts.dir/region.c.o.d -o CMakeFiles/genomicsdb-hts.dir/region.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/region.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_rle.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/regidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/regidx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/regidx.c [ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -MF CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o.d -o CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/synced_bcf_reader.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o -MF CMakeFiles/genomicsdb-hts.dir/sam.c.o.d -o CMakeFiles/genomicsdb-hts.dir/sam.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/sam.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_zstd.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle/bitshuffle_core.c make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 12%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle/iochain.c [ 12%] Generating source/header files from .proto files cd /build/reproducible-path/genomicsdb-1.5.5/src/resources && /usr/bin/protoc --cpp_out=/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources genomicsdb_coordinates.proto genomicsdb_callsets_mapping.proto genomicsdb_export_config.proto genomicsdb_import_config.proto genomicsdb_vid_mapping.proto /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c: In function 'libcurl_open': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c:1335:9: warning: 'CURLINFO_CONTENT_LENGTH_DOWNLOAD' is deprecated: since 7.55.0. Use CURLINFO_CONTENT_LENGTH_DOWNLOAD_T [-Wdeprecated-declarations] 1335 | if (curl_easy_getinfo(fp->easy, CURLINFO_CONTENT_LENGTH_DOWNLOAD, | ^~ [ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o In file included from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c:47: /usr/include/x86_64-linux-gnu/curl/curl.h:2932:3: note: declared here 2932 | CURLINFO_CONTENT_LENGTH_DOWNLOAD | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o -MF CMakeFiles/genomicsdb-hts.dir/tbx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/tbx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/tbx.c [ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o [ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/expressions/expression.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf_sweep.c [ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/textutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/textutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/textutils.c [ 14%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -MF CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o.d -o CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/thread_pool.c [ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/book_keeping.cc [ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/fragment.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/read_state.cc [ 15%] Built target PROTOBUF_GENERATED_CXX_TARGET [ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf.c [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/write_state.cc make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/DependInfo.cmake "--color=" [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata.cc [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata_iterator.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcfutils.c [ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_codecs.c [ 17%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o -MF 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 /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc [ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_decode.c [ 17%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations_columnar.cc [ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o [ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/error.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/hilbert_curve.cc [ 19%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc [ 19%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc [ 19%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_cell.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_storage_manager.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc [ 20%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o [ 20%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc [ 20%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_encode.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_external.c [ 21%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_index.c [ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/mem_utils.cc [ 21%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant.cc [ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_handler.cc [ 22%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_io.c [ 22%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_samtools.c [ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o [ 23%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc [ 23%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/progress_bar.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations_columnar.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc: In function 'int tiledb_array_set_schema(TileDB_ArraySchema*, const char*, const char**, int, int64_t, int, const int*, const int*, const int*, const int*, const int*, int, const char**, int, const void*, size_t, const void*, size_t, int, const int*)': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:409:22: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 409 | (int*) malloc((attribute_num)*sizeof(int)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/cstdlib:83, from /usr/include/c++/15/ext/string_conversions.h:45, from /usr/include/c++/15/bits/basic_string.h:4444, from /usr/include/c++/15/string:56, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api/tiledb.h:44, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:36: /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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:440:62: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 440 | tiledb_array_schema->offsets_compression_ = (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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:440:62: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 440 | tiledb_array_schema->offsets_compression_ = (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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:448:68: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 448 | tiledb_array_schema->offsets_compression_level_ = (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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:448:68: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 448 | tiledb_array_schema->offsets_compression_level_ = (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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:440:62: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 440 | tiledb_array_schema->offsets_compression_ = (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__ | ^~~~~~ [ 24%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc [ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_construct.h:61, from /usr/include/c++/15/bits/stl_tempbuf.h:61, from /usr/include/c++/15/memory:68, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/genomicsdb_importer.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_array_schema.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_cell.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_file_base.cc [ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_storage_manager.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:28: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/memory_measure.cc /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc: In function 'int tiledb_metadata_set_schema(TileDB_MetadataSchema*, const char*, const char**, int, int64_t, const int*, const int*, const int*, const int*)': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:1131:22: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1131 | (int*) malloc((attribute_num)*sizeof(int)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /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__ | ^~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/gt_remapper.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/gt_remapper_template_definition.h:25, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/histogram.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_handler.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_INFO_fields(const Variant&)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:622:37: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 622 | auto stringified = std::move(m_field_handlers[bcf_ht_type]->stringify_2D_vector(*(BCF_INFO_GET_FIELD_INFO_PTR(curr_tuple)))); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:622:37: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:643:34: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_deletions(Variant&)': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:1106:37: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc: In member function 'virtual void AlleleCountOperator::operate_on_columnar_cell(const GenomicsDBColumnarCell&, const VariantQueryConfig&, const VariantArraySchema&)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:984:36: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 984 | auto REF_ALT_pair = std::move(std::pair( | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 985 | std::string(REF_ptr, REF_length), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 986 | std::string(ALT_ptr+m_cell_ALT_offsets[ALT_idx], | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 987 | m_cell_ALT_offsets[ALT_idx+1]-m_cell_ALT_offsets[ALT_idx]-1))); //-1 to ignore delim char | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:984:36: note: remove 'std::move' call [ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/lut.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc [ 28%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_stats.c [ 28%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/mFILE.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/genomicsdb_importer.h:25, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/genomicsdb_importer.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 28%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/uri.cc [ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc [ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_sql.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc:27: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_algobase.h:65, from /usr/include/c++/15/bits/specfun.h:43, from /usr/include/c++/15/cmath:3913, from /usr/include/fmt/format.h:36, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:32: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_file_base.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_text_file.h:33, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:30: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/open_trace_file.c [ 30%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/pooled_alloc.c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc: In member function 'std::vector GenomicsDBMultiDVectorField::parse_and_store_numeric(const char*, size_t)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 436 | auto total_size_of_multi_d_data_vec = std::move(GenomicsDBMultiDVectorField::parse_and_store_numeric( | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 437 | m_rw_field_data, *m_field_info_ptr, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 438 | str, str_length)); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: note: remove 'std::move' call [ 30%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/utils.cc [ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o [ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_buffer.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/timer.cc [ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager.cc [ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_fs.cc [ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager_config.cc [ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/genomicsdb_logger.cc [ 31%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/rANS_static.c [ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc [ 33%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_posixfs.cc [ 33%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/string_alloc.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc:27: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/known_field_info.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf_adapter.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc [ 33%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4/lz4.c [ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf2binary.cc [ 34%] Building C object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cc -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/hfile_genomicsdb.c [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/htslib_fs_adapter.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/variant_query_config.cc [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:33: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/alleles_combiner.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/alleles_combiner_template_definition.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void VidMapper::parse_string_length_descriptor(const char*, const char*, size_t, FieldLengthDescriptor&, size_t)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:757:47: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 757 | auto length_value_upper_case_str = std::move(std::string(length_value_str)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:757:47: note: remove 'std::move' call [ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/pb_config.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void FileBasedVidMapper::common_constructor_initialization(const rapidjson::Value&)': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:1269:40: note: remove 'std::move' call [ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/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-1.5.5/src/main/cpp/src/api/annotation_service.cc [ 37%] Linking C shared library libgenomicsdb-hts.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdb-hts.dir/link.txt --verbose=1 /usr/bin/cc -fPIC -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--dependency-file=CMakeFiles/genomicsdb-hts.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libgenomicsdb-hts.so -o libgenomicsdb-hts.so "CMakeFiles/genomicsdb-hts.dir/kfunc.c.o" "CMakeFiles/genomicsdb-hts.dir/knetfile.c.o" "CMakeFiles/genomicsdb-hts.dir/kstring.c.o" "CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o" "CMakeFiles/genomicsdb-hts.dir/bgzf.c.o" "CMakeFiles/genomicsdb-hts.dir/errmod.c.o" "CMakeFiles/genomicsdb-hts.dir/faidx.c.o" "CMakeFiles/genomicsdb-hts.dir/header.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o" "CMakeFiles/genomicsdb-hts.dir/hts.c.o" "CMakeFiles/genomicsdb-hts.dir/hts_os.c.o" "CMakeFiles/genomicsdb-hts.dir/md5.c.o" "CMakeFiles/genomicsdb-hts.dir/multipart.c.o" "CMakeFiles/genomicsdb-hts.dir/probaln.c.o" "CMakeFiles/genomicsdb-hts.dir/realn.c.o" "CMakeFiles/genomicsdb-hts.dir/regidx.c.o" "CMakeFiles/genomicsdb-hts.dir/region.c.o" "CMakeFiles/genomicsdb-hts.dir/sam.c.o" "CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o" "CMakeFiles/genomicsdb-hts.dir/tbx.c.o" "CMakeFiles/genomicsdb-hts.dir/textutils.c.o" "CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf.c.o" "CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o" /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 37%] Built target genomicsdb-hts [ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/variant_query_config.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_algobase.h:65, from /usr/include/c++/15/algorithm:62, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/variant_query_config.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc: In member function 'const bool GenomicsDBConfigBase::has_array_name(int) const': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc:101:53: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'const int' [-Wsign-compare] 101 | (!m_single_array_name && m_array_names.size() > rank)) { | ~~~~~~~~~~~~~~~~~~~~~^~~~~~ [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_field.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf2binary.cc:29: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/vcf2binary.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf2binary.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_plink.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc: In member function 'rapidjson::Document GenomicsDBConfigBase::read_from_file(const std::string&, int)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc:193:43: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 193 | rapidjson::Document json_doc = std::move(parse_json_file(filename)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc:193:43: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc: In member function 'void GenomicsDBImportConfig::read_from_file(const std::string&, int)': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/src/main/cpp/src/config/json_config.cc:704:43: note: remove 'std::move' call [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_utils.cc [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_json_processor.cc [ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_coordinates.pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:46: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb_exception.h:37, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb.h:37, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:34: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_callsets_mapping.pb.cc [ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_export_config.pb.cc [ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_import_config.pb.cc [ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_vid_mapping.pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_plink.cc:40: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb_exception.h:37, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb.h:37, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb_plink.h:35, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_plink.cc:34: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 40%] Linking CXX static library libgenomicsdb-tiledb.a cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -P CMakeFiles/tiledb_static.dir/cmake_clean_target.cmake [ 41%] Linking CXX shared library libgenomicsdb-tiledb.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_shared.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_static.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,--dependency-file=CMakeFiles/tiledb_shared.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libgenomicsdb-tiledb.so -o libgenomicsdb-tiledb.so CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o 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-1.5.5/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 CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o 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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 41%] 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 make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -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 -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_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -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 -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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/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 [ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o [ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o [ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -MF CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o.d -o CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_array_schema.cc [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -MF CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d -o CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -MF CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o.d -o CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -MF CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d -o CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -MF CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d -o CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_dense_array_api.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -MF CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d -o CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_tiledb_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -MF CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d -o CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/array/test_array_schema.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -MF CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o.d -o CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_sparse_array_api.cc [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -MF CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d -o CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -MF CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d -o CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_book_keeping.cc [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o [ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o [ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -MF CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d -o CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec_filter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -MF CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o.d -o CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_mem_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -MF CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o.d -o CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/expressions/test_filter_api.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -MF CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d -o CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/expressions/test_expressions.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -MF CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o.d -o CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_uri.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 45%] Linking CXX executable test_print_array_schema cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_array_schema.dir/link.txt --verbose=1 [ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -MF CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o.d -o CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 47%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -MF CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o.d -o CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/storage_manager/test_posixfs.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 47%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -MF CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o.d -o CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/storage_manager/test_storage_buffer.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f 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genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -MF CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o.d -o CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_3d.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_print_array_schema.dir/link.d CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -o test_print_array_schema ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" [ 47%] Built target test_print_array_schema make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" [ 47%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -MF CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o.d -o CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_aio_read_dense.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 48%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -MF CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d -o CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_aio_write_dense.cc [ 48%] Linking CXX executable test_print_book_keeping cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_book_keeping.dir/link.txt --verbose=1 [ 49%] Linking CXX executable tiledb_array_3d cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_3d.dir/link.txt --verbose=1 [ 49%] Linking CXX executable tiledb_array_aio_read_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_read_dense.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 49%] Linking CXX executable tiledb_array_aio_write_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_write_dense.dir/link.txt --verbose=1 [ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -MF 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/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -MF CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d -o CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_create_dense.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends 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/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -MF CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d -o CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_create_sparse.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_print_book_keeping.dir/link.d CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -o test_print_book_keeping ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 49%] Built target test_print_book_keeping make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -MF CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o.d -o CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_dense.cc [ 50%] Linking CXX executable tiledb_array_consolidate cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_consolidate.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_aio_read_dense.dir/link.d CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -o tiledb_array_aio_read_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 50%] Linking CXX executable tiledb_array_create_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_dense.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_aio_write_dense.dir/link.d CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -o tiledb_array_aio_write_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx [ 50%] 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/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_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse_filter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_3d.dir/link.d CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -o tiledb_array_3d ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 51%] Built target tiledb_array_3d [ 51%] 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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 52%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -MF CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d -o CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_sparse.cc [ 52%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -MF CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d -o CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_dense.cc [ 53%] Linking CXX executable tiledb_array_create_sparse cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_sparse.dir/link.txt --verbose=1 [ 53%] Linking CXX executable test_mem_utils cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mem_utils.dir/link.txt --verbose=1 [ 53%] Linking CXX executable tiledb_array_iterator_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_dense.dir/link.txt --verbose=1 [ 54%] Linking CXX executable tiledb_array_iterator_sparse_filter cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.txt --verbose=1 [ 54%] Linking CXX executable tiledb_array_iterator_sparse cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_consolidate.dir/link.d CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -o tiledb_array_consolidate ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_mem_utils.dir/link.d CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -o test_mem_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 54%] Built target test_mem_utils make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 54%] Built target tiledb_array_consolidate 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-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_2.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Built target tiledb_array_create_dense [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -MF CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_1.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" [ 55%] Linking CXX executable tiledb_array_parallel_consolidate_sparse cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -MF CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_mpi_io_dense.cc [ 55%] Linking CXX executable tiledb_array_parallel_consolidate_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.txt --verbose=1 In file included from /usr/include/c++/15/bits/basic_string.h:51, from /usr/include/c++/15/string:56: 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++/15/string_view:340:25, inlined from 'std::string_view get_segment(std::string_view, int)' at /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:819:20: /usr/include/c++/15/string_view:74:5: warning: 'pos' may be used uninitialized [-Wmaybe-uninitialized] 74 | if (__pos > __size) | ^~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc: In function 'std::string_view get_segment(std::string_view, int)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:806:26: note: 'pos' was declared here 806 | std::string::size_type pos; | ^~~ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_create_sparse.dir/link.d CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -o tiledb_array_create_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Built target tiledb_array_create_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_1.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_dense.dir/link.d CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -o tiledb_array_iterator_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Built target tiledb_array_iterator_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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_2.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -o tiledb_array_iterator_sparse_filter ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 56%] Built target tiledb_array_iterator_sparse_filter 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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse.dir/link.d 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/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 56%] Linking CXX executable tiledb_array_parallel_read_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 56%] Linking CXX executable tiledb_array_parallel_read_dense_1 [ 57%] Linking CXX executable tiledb_array_parallel_read_mpi_io_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.txt --verbose=1 [ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_1.cc [ 57%] Built target tiledb_array_iterator_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_2.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 57%] Built target tiledb_array_parallel_consolidate_sparse 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -o tiledb_array_parallel_consolidate_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" [ 57%] Built target tiledb_array_parallel_consolidate_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.d CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -o tiledb_array_parallel_read_mpi_io_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_1.cc [ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_2.cc [ 57%] Built target tiledb_array_parallel_read_mpi_io_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -MF CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d -o CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_primitive.cc [ 58%] Linking CXX executable test_array_schema cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -MF 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/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" [ 59%] Linking CXX executable test_codec cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 59%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -MF CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d -o 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/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -o tiledb_array_parallel_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -o tiledb_array_parallel_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 60%] Built target tiledb_array_parallel_read_dense_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 [ 60%] Built target tiledb_array_parallel_read_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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" [ 61%] Linking CXX executable tiledb_array_parallel_write_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" [ 61%] Linking CXX executable tiledb_array_parallel_write_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 61%] Linking CXX executable tiledb_array_primitive [ 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_1.cc [ 62%] Linking CXX executable tiledb_array_read_dense_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_1.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_primitive.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -MF CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d -o CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_3.cc [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_sorted.cc [ 63%] Linking CXX executable test_codec_filter cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec_filter.dir/link.txt --verbose=1 [ 63%] Linking CXX executable tiledb_array_read_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema.dir/link.d CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -o test_array_schema ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 63%] Built target test_array_schema make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -o tiledb_array_parallel_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_2.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_codec.dir/link.d CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -o test_codec ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 63%] Built target test_codec [ 63%] Built target tiledb_array_parallel_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/depend /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_codec_filter.dir/link.d CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -o test_codec_filter ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" make -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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 63%] Built target test_codec_filter make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_1.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 64%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_2.cc [ 64%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o [ 65%] Linking CXX executable tiledb_array_read_dense_sorted cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -MF CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_sorted.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_sorted.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -o tiledb_array_parallel_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.d CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -o tiledb_array_parallel_read_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 65%] Built target tiledb_array_parallel_write_dense_1 [ 65%] Linking CXX executable tiledb_array_read_dense_3 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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_3.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -o tiledb_array_parallel_write_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 65%] Built target tiledb_array_parallel_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build [ 65%] Built target tiledb_array_parallel_write_dense_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" [ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -MF CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d -o CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_2.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build [ 66%] Linking CXX executable tiledb_array_read_sparse_1 [ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_1.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -MF CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d -o CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_1.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -MF CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_1.cc [ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -MF CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_2.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -o tiledb_array_parallel_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 67%] Built target tiledb_array_parallel_write_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" [ 67%] Linking CXX executable test_filter_api cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_filter_api.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc [ 68%] Linking CXX executable tiledb_array_read_sparse_2 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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_1.dir/link.d CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -o tiledb_array_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_2.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 68%] Built target tiledb_array_read_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/depend /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_2.dir/link.d CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -o tiledb_array_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_2.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" [ 68%] Built target tiledb_array_read_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" [ 68%] Linking CXX executable tiledb_array_read_sparse_filter_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build [ 68%] Linking CXX executable tiledb_array_read_sparse_filter_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' [ 69%] 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_sorted.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -o tiledb_array_parallel_write_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx [ 70%] Linking CXX executable tiledb_array_read_sparse_sorted make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.txt --verbose=1 [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o [ 70%] Built target tiledb_array_parallel_write_sparse_2 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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_1.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_primitive.dir/link.d CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -o tiledb_array_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 70%] Built target tiledb_array_primitive make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_2.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 70%] Linking CXX executable tiledb_array_update_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_2.dir/link.txt --verbose=1 [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -MF CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_3.cc [ 70%] Linking CXX executable tiledb_array_update_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_3.dir/link.d CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -o tiledb_array_read_dense_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 [ 70%] Linking CXX executable tiledb_array_update_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_2.dir/link.txt --verbose=1 [ 70%] Linking CXX executable tiledb_array_update_dense_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_1.dir/link.txt --verbose=1 [ 70%] Built target tiledb_array_read_dense_3 [ 70%] 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/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -o tiledb_array_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -MF CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d -o CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_catching_errors.cc [ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -MF CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_4.cc [ 71%] Built target tiledb_array_read_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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o [ 72%] Linking CXX executable tiledb_array_write_dense_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_1.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -MF CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d -o CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_clear_delete_move.cc [ 72%] Linking CXX executable tiledb_array_write_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_2.dir/link.txt --verbose=1 [ 72%] Linking CXX executable tiledb_array_write_dense_sorted cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_sorted.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -o tiledb_array_read_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_filter_api.dir/link.d CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -o test_filter_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 72%] Linking CXX executable tiledb_catching_errors [ 72%] Linking CXX executable tiledb_array_write_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_2.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_catching_errors.dir/link.txt --verbose=1 [ 73%] Linking CXX executable tiledb_array_write_sparse_3 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_3.dir/link.txt --verbose=1 [ 74%] Linking CXX executable tiledb_array_write_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -o tiledb_array_read_sparse_filter_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -o tiledb_array_read_sparse_filter_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 74%] Built target tiledb_array_read_sparse_filter_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend [ 74%] Linking CXX executable tiledb_array_write_sparse_4 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_4.dir/link.txt --verbose=1 [ 74%] Built target tiledb_array_read_sparse_filter_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend [ 74%] Built target tiledb_array_read_sparse_2 [ 74%] Built target test_filter_api make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -o tiledb_array_read_sparse_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_dense_2.dir/link.d CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -o tiledb_array_update_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_sparse_2.dir/link.d CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -o tiledb_array_update_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_dense_1.dir/link.d CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -o tiledb_array_update_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 [ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o [ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -MF CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d -o CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_config.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -MF CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d -o CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_ls_workspaces.cc [ 74%] Built target tiledb_array_read_sparse_sorted make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" [ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -MF CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d -o CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_ls.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" [ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o [ 75%] Built target tiledb_array_update_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -MF CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d -o CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_delete.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend [ 75%] Built target tiledb_array_update_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -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-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o [ 78%] Linking CXX executable tiledb_clear_delete_move [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o [ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o [ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -MF CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o.d -o CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_update.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -MF CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d -o CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_create.cc [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -MF CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d -o CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_read.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_clear_delete_move.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -MF 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-MF CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d -o CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_iterator.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -MF CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d -o CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_consolidate.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_1.dir/link.d CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -o tiledb_array_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Built target tiledb_array_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/depend /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_sorted.dir/link.d CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -o tiledb_array_write_dense_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_catching_errors.dir/link.d CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -o tiledb_catching_errors ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -o tiledb_array_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_2.dir/link.d CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -o tiledb_array_write_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_3.dir/link.d CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -o tiledb_array_write_sparse_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Built target tiledb_array_write_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build [ 78%] Linking CXX executable test_uri make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Linking CXX executable tiledb_ls_workspaces cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_uri.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls_workspaces.dir/link.txt --verbose=1 [ 78%] Linking CXX executable tiledb_metadata_create cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_create.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Linking CXX executable tiledb_config make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_config.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -MF CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o.d -o CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_workspace_group_create.cc [ 78%] Linking CXX executable tiledb_metadata_update [ 78%] Linking CXX executable tiledb_metadata_read [ 79%] Linking CXX executable tiledb_ls cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_update.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_read.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls.dir/link.txt --verbose=1 [ 80%] Linking CXX executable tiledb_metadata_consolidate [ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_consolidate.dir/link.txt --verbose=1 [ 80%] Linking CXX executable tiledb_metadata_iterator cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -MF CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d -o CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_write.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_iterator.dir/link.txt --verbose=1 In file included from /usr/include/string.h:548, from /usr/include/c++/15/cstring:48, 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-1.5.5/genomicsdb-tiledb/test/include/catch2/catch.h:39, from /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_4.dir/link.d CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -o tiledb_array_write_sparse_4 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 80%] Built target tiledb_array_write_sparse_4 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_clear_delete_move.dir/link.d CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -o tiledb_clear_delete_move ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 80%] Built target tiledb_catching_errors [ 80%] Built target tiledb_clear_delete_move [ 80%] Built target tiledb_array_write_sparse_1 [ 80%] Built target tiledb_array_write_dense_sorted [ 80%] Built target tiledb_array_write_dense_1 [ 80%] Built target tiledb_array_write_sparse_3 [ 81%] Linking CXX executable tiledb_metadata_primitive cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_primitive.dir/link.txt --verbose=1 [ 81%] Linking CXX executable tiledb_delete cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_delete.dir/link.txt --verbose=1 In file included from /usr/include/x86_64-linux-gnu/c++/15/bits/c++allocator.h:33, from /usr/include/c++/15/bits/allocator.h:46, from /usr/include/c++/15/string:45, 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-1.5.5/genomicsdb-tiledb/test/include/catch2/catch.h:39, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc:34: In member function 'void std::__new_allocator<_Tp>::deallocate(_Tp*, size_type) [with _Tp = std::__cxx11::basic_string]', inlined from 'static void std::allocator_traits >::deallocate(allocator_type&, pointer, size_type) [with _Tp = std::__cxx11::basic_string]' at /usr/include/c++/15/bits/alloc_traits.h:649:23, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_deallocate(pointer, std::size_t) [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:396:19, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_deallocate(pointer, std::size_t) [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:392:7, inlined from 'std::_Vector_base<_Tp, _Alloc>::~_Vector_base() [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:375:15, inlined from 'std::vector<_Tp, _Alloc>::~vector() [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:805:7, inlined from 'std::string readable_size(size_t, bool)' at /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark/tiledb_benchmark.h:496:3: /usr/include/c++/15/bits/new_allocator.h:172:66: warning: 'void operator delete(void*, std::size_t)' called on pointer '__result' with nonzero offset 32 [-Wfree-nonheap-object] 172 | _GLIBCXX_OPERATOR_DELETE(_GLIBCXX_SIZED_DEALLOC(__p, __n)); | ^ In file included from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc:36: /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark/tiledb_benchmark.h: In function 'std::string readable_size(size_t, bool)': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark/tiledb_benchmark.h:483:13: note: declared here 483 | std::string readable_size(size_t size, bool human_readable_sizes) { | ^~~~~~~~~~~~~ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_uri.dir/link.d CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -o test_uri ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 81%] Built target test_uri [ 82%] Linking CXX executable tiledb_workspace_group_create cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_workspace_group_create.dir/link.txt --verbose=1 [ 82%] Linking CXX executable tiledb_metadata_write cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_write.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls_workspaces.dir/link.d CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -o tiledb_ls_workspaces ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_config.dir/link.d CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -o tiledb_config ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_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-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_update.dir/link.d CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -o tiledb_metadata_update ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_ls_workspaces [ 82%] Built target tiledb_config [ 82%] Built target tiledb_metadata_create [ 82%] Built target tiledb_metadata_update /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_delete.dir/link.d CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -o tiledb_delete ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_delete /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls.dir/link.d CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -o tiledb_ls ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_consolidate.dir/link.d CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -o tiledb_metadata_consolidate ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_ls make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_read.dir/link.d CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -o tiledb_metadata_read ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_metadata_iterator [ 82%] Built target tiledb_metadata_consolidate [ 82%] Built target tiledb_metadata_read /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_primitive.dir/link.d CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -o tiledb_metadata_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_metadata_primitive /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_write.dir/link.d CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -o tiledb_metadata_write ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_metadata_write /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_workspace_group_create.dir/link.d CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -o tiledb_workspace_group_create 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cmake_link_script CMakeFiles/test_sparse_array_benchmark.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema_api.dir/link.d CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -o test_array_schema_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 84%] Built target test_array_schema_api [ 85%] Linking CXX executable test_dense_array_api cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_dense_array_api.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_sparse_array_benchmark.dir/link.d CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -o test_sparse_array_benchmark ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 85%] Linking CXX executable test_storage_buffer cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_storage_buffer.dir/link.txt --verbose=1 [ 85%] Built target test_sparse_array_benchmark /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_dense_array_api.dir/link.d CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -o test_dense_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 85%] Built target test_dense_array_api [ 85%] Linking CXX executable test_utils cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_utils.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_storage_buffer.dir/link.d CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -o test_storage_buffer ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 85%] Built target test_storage_buffer [ 86%] Linking CXX executable test_tiledb_utils cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tiledb_utils.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_utils.dir/link.d 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/usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target test_tiledb_utils make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Linking CXX shared library libgenomicsdb.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledbgenomicsdb.dir/link.txt --verbose=1 [ 86%] Linking CXX static library libgenomicsdb.a cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -P CMakeFiles/genomicsdb.dir/cmake_clean_target.cmake [ 86%] Linking CXX executable test_posixfs cd 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CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o 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CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o 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CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_posixfs.dir/link.d CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -o test_posixfs ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target test_posixfs ct_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -Wl,-rpath,/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core: /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_symlink_library libgenomicsdb.so.1.5.4 libgenomicsdb.so.1 libgenomicsdb.so make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target tiledbgenomicsdb make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 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_GenomicsDBQuery.cc.o [ 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_jni_init.cc.o [ 87%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb 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-ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQuery.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED 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-I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_jni_init.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:29: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api/tiledb.h:44, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api/tiledb_utils.h:39, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/vcf2binary.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 87%] Linking CXX executable test_expressions cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_expressions.dir/link.txt --verbose=1 /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniInitializeGenomicsDBImporterObject(JNIEnv*, jobject, jstring, jint)': /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:102:3: warning: control reaches end of non-void function [-Wreturn-type] 102 | } | ^ /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniSetupGenomicsDBLoader(JNIEnv*, jobject, jlong, jstring)': /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:159:3: warning: control reaches end of non-void function [-Wreturn-type] 159 | } | ^ /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jboolean Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniImportBatch(JNIEnv*, jobject, jlong, jlongArray)': /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:231:3: warning: control reaches end of non-void function [-Wreturn-type] 231 | } | ^ [ 87%] Linking CXX executable test_sparse_array_api cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sparse_array_api.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_expressions.dir/link.d CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -o test_expressions ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 87%] Built target test_expressions /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_sparse_array_api.dir/link.d CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -o test_sparse_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 87%] Built target test_sparse_array_api _mapping.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o /usr/bin/ranlib libgenomicsdb.a make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 87%] Built target genomicsdb 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 make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/depend make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/build make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/build make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 90%] Building CXX object 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/build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config 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/usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/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-1.5.5/tools/src/gt_mpi_gather.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o -MF CMakeFiles/ctests.dir/src/test_pb.cc.o.d -o 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE 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-DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o -MF 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -MF 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-Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -MF CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o.d -o CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_genomicsdb_api.cc [ 92%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -MF CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o.d -o CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc [ 92%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/ctest_main.cc.o -MF CMakeFiles/ctests.dir/src/ctest_main.cc.o.d -o CMakeFiles/ctests.dir/src/ctest_main.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/ctest_main.cc [ 93%] Building CXX object tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_config.cc.o -MF CMakeFiles/ctests.dir/src/test_config.cc.o.d -o CMakeFiles/ctests.dir/src/test_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_config.cc [ 93%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/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-1.5.5/tools/src/create_genomicsdb_workspace.cc [ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -MF 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o -MF CMakeFiles/ctests.dir/src/test_logger.cc.o.d -o CMakeFiles/ctests.dir/src/test_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_logger.cc [ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o -MF CMakeFiles/api_tests.dir/src/ctest_main.cc.o.d -o CMakeFiles/api_tests.dir/src/ctest_main.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/ctest_main.cc [ 95%] Building CXX object example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils 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CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc [ 95%] Building CXX object example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include 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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 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -MF CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o.d -o CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_htslib_plugin.cc cd /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch 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-DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o -MF CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d -o CMakeFiles/ctests.dir/src/test_query_variants.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_query_variants.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o -MF CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o.d -o CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_gt_remapper.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -MF CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o.d -o CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -MF CMakeFiles/ctests.dir/src/test_mem_utils.cc.o.d -o CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_mem_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -MF CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/tools/include/vcfdiff.h:31, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/tools/include/vcfdiff.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, 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-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:30: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In constructor 'VCFDiffFile::VCFDiffFile(const std::string&, const std::string&)': /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:83:41: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 83 | std::string field_name = std::move(std::string(bcf_hdr_int2id(m_hdr, BCF_DT_ID, i))); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:83:41: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In member function 'void VCFDiffFile::compare_line(const bcf_hdr_t*, bcf1_t*)': /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 591 | auto gold_ID_set = std::move(get_ID_set(gold_line)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 592 | auto test_ID_set = std::move(get_ID_set(m_line)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_query_variants.cc:31: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, 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-1.5.5/src/test/cpp/src/test_query_variants.cc:28: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_columnar_gvcf_iterator.cc:31: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, 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-1.5.5/src/test/cpp/src/test_columnar_gvcf_iterator.cc:29: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_multid_vector.cc:27: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, 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-1.5.5/src/test/cpp/src/test_multid_vector.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_algobase.h:65, from /usr/include/c++/15/bits/hashtable_policy.h:36, from /usr/include/c++/15/bits/hashtable.h:37, from /usr/include/c++/15/bits/unordered_map.h:33, from /usr/include/c++/15/unordered_map:43, from /usr/include/c++/15/functional:65, from /usr/include/spdlog/common.h:13, from /usr/include/spdlog/spdlog.h:12, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/genomicsdb_logger.h:41, from /build/reproducible-path/genomicsdb-1.5.5/tools/include/common.h:27, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf_histogram.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/vcf2binary.h:26, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf_histogram.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:29: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/genomicsdb_importer.h:25, from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc: In function 'int main(int, char**)': /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:165:45: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 165 | auto loader_json_config_file = std::move(std::string(argv[optind])); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:165:45: note: remove 'std::move' call [ 96%] Linking CXX executable test_genomicsdb_bcf_generator cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_bcf_generator.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -o test_genomicsdb_bcf_generator -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 96%] Linking CXX shared library libgenomicsdbjni.so [ 96%] Built target test_genomicsdb_bcf_generator cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdbjni.dir/link.txt --verbose=1 [ 96%] Linking CXX executable gt_mpi_gather cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/gt_mpi_gather.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,--dependency-file=CMakeFiles/genomicsdbjni.dir/link.d -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -shared -Wl,-soname,libgenomicsdbjni.so -o libgenomicsdbjni.so CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib libgenomicsdb.so.1.5.4 ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 96%] Built target genomicsdbjni /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/gt_mpi_gather.dir/link.d CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o -o gt_mpi_gather -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 96%] Built target gt_mpi_gather [ 96%] Linking CXX executable create_genomicsdb_workspace cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/create_genomicsdb_workspace.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/create_genomicsdb_workspace.dir/link.d CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -o create_genomicsdb_workspace -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 96%] Built target create_genomicsdb_workspace [ 97%] Linking CXX executable vcfdiff cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfdiff.dir/link.txt --verbose=1 [ 97%] Linking CXX executable test_genomicsdb_demo cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_demo.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcfdiff.dir/link.d CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o -o vcfdiff -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 97%] Built target vcfdiff /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_demo.dir/link.d CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o -o test_genomicsdb_demo -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 97%] Built target test_genomicsdb_demo [ 97%] Linking CXX executable api_tests cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/api_tests.dir/link.txt --verbose=1 [ 97%] Linking CXX executable vcf_histogram cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf_histogram.dir/link.txt --verbose=1 [ 98%] Linking CXX executable consolidate_genomicsdb_array cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/consolidate_genomicsdb_array.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/api_tests.dir/link.d CMakeFiles/api_tests.dir/src/ctest_main.cc.o CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -o api_tests -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E tar xzf /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/../inputs/test.tgz make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 98%] Built target api_tests [ 99%] Linking CXX executable vcf2genomicsdb cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf_histogram.dir/link.d CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o -o vcf_histogram -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 99%] Built target vcf_histogram [ 99%] Linking CXX executable test_genomicsdb_importer cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_importer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/consolidate_genomicsdb_array.dir/link.d CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -o consolidate_genomicsdb_array -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 99%] Built target consolidate_genomicsdb_array /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf2genomicsdb.dir/link.d CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -o vcf2genomicsdb -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 99%] Built target vcf2genomicsdb /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_importer.dir/link.d CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -o test_genomicsdb_importer -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 99%] Built target test_genomicsdb_importer [100%] Linking CXX executable ctests cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/ctests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/ctests.dir/link.d CMakeFiles/ctests.dir/src/ctest_main.cc.o CMakeFiles/ctests.dir/src/test_config.cc.o CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o CMakeFiles/ctests.dir/src/test_multid_vector.cc.o CMakeFiles/ctests.dir/src/test_pb.cc.o CMakeFiles/ctests.dir/src/test_logger.cc.o CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o CMakeFiles/ctests.dir/src/test_bgen.cc.o CMakeFiles/ctests.dir/src/test_query_variants.cc.o CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -o ctests -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [100%] Built target ctests [100%] Linking CXX executable vcf2genomicsdb_init cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb_init.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf2genomicsdb_init.dir/link.d CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o -o vcf2genomicsdb_init -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [100%] Built target vcf2genomicsdb_init make[3]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' debian/rules override_dh_auto_build-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Building the Java part with Maven. dh_auto_build --buildsystem=maven /usr/lib/jvm/default-java/bin/java -noverify -cp /usr/share/maven/boot/plexus-classworlds-2.x.jar -Dmaven.home=/usr/share/maven -Dmaven.multiModuleProjectDirectory=/build/reproducible-path/genomicsdb-1.5.5 -Dclassworlds.conf=/etc/maven/m2-debian.conf -Dproperties.file.manual=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.properties org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.5/debian -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo --batch-mode package -DskipTests -Dnotimestamp=true -Dlocale=en_US OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release. [INFO] Scanning for projects... [INFO] [INFO] ---------------------< org.genomicsdb:genomicsdb >---------------------- [INFO] Building org.genomicsdb:genomicsdb 1.5.5 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [WARNING] The artifact com.googlecode.json-simple:json-simple:jar:debian has been relocated to com.github.cliftonlabs:json-simple:jar:debian [INFO] [INFO] --- antrun:3.1.0:run (exec-protoc) @ genomicsdb --- [INFO] Executing tasks [INFO] [mkdir] Created dir: /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java [INFO] Executed tasks [INFO] [INFO] --- build-helper:3.3.0:add-source (add-source) @ genomicsdb --- [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/src/main/scala added. [INFO] [INFO] --- resources:3.3.1:resources (default-resources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.5/src/main/resources [INFO] [INFO] --- compiler:3.13.0:compile (default-compile) @ genomicsdb --- [INFO] Recompiling the module because of changed source code. [INFO] Compiling 30 source files with javac [debug target 17] to build/classes [WARNING] system modules path not set in conjunction with -source 17 [INFO] Annotation processing is enabled because one or more processors were found on the class path. A future release of javac may disable annotation processing unless at least one processor is specified by name (-processor), or a search path is specified (--processor-path, --processor-module-path), or annotation processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBVidMapProto.java:[93,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBTimer.java:[37,14] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/ImportConfig.java:[76,36] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[177,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2228,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2269,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[792,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3035,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3987,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBCallsetsMapProto.java:[139,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/exception/GenomicsDBException.java:[28,8] serializable class org.genomicsdb.exception.GenomicsDBException has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,50] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[160,28] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[333,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[333,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[334,9] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[334,30] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[336,9] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[336,41] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[338,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[338,36] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[342,17] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[342,40] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[462,17] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[462,45] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[483,9] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[483,41] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[690,94] found raw type: java.util.concurrent.CompletableFuture missing type arguments for generic class java.util.concurrent.CompletableFuture [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[224,46] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[99,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[109,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[50,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.Pair has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[70,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.VariantCall has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[76,25] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[110,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.Interval has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[112,23] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[483,84] PARSER in org.genomicsdb.model.Coordinates.GenomicsDBColumnOrInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[5485,72] PARSER in org.genomicsdb.model.Coordinates.ContigInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[4407,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[10171,72] PARSER in org.genomicsdb.model.Coordinates.ContigInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7553,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7594,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7635,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[54,27] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[139,58] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[79,39] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[206,31] previous possible 'this' escape happens here via invocation [INFO] [INFO] --- antrun:3.1.0:run (copy-native-libs) @ genomicsdb --- [INFO] Executing tasks [WARNING] [exec] The command attribute is deprecated. [exec] Please use the executable attribute and nested arg elements. [INFO] [exec] cp: cannot stat '/build/reproducible-path/genomicsdb-1.5.5/build/src/main/libtiledbgenomicsdb.dylib': No such file or directory [INFO] [exec] Result: 1 [WARNING] [exec] The command attribute is deprecated. [exec] Please use the executable attribute and nested arg elements. [INFO] [exec] cp: cannot stat '/build/reproducible-path/genomicsdb-1.5.5/build/src/main/libtiledbgenomicsdb.so': No such file or directory [INFO] [exec] Result: 1 [INFO] Executed tasks [INFO] [INFO] --- resources:3.3.1:testResources (default-testResources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.5/src/test/resources [INFO] [INFO] --- antrun:3.1.0:run (unzip-test-artifacts) @ genomicsdb --- [INFO] Executing tasks [INFO] [mkdir] Created dir: /build/reproducible-path/genomicsdb-1.5.5/build/test [INFO] [copy] Copying 1 file to /build/reproducible-path/genomicsdb-1.5.5/build/test [INFO] [gunzip] Expanding test.tar.gz to /build/reproducible-path/genomicsdb-1.5.5/build/test/test.tar [INFO] [untar] Expanding: /build/reproducible-path/genomicsdb-1.5.5/build/test/test.tar into /build/reproducible-path/genomicsdb-1.5.5/build/test [INFO] Executed tasks [INFO] [INFO] --- compiler:3.13.0:testCompile (default-testCompile) @ genomicsdb --- [INFO] Recompiling the module because of changed dependency. [INFO] Compiling 12 source files with javac [debug target 17] to build/test-classes [WARNING] system modules path not set in conjunction with -source 17 [INFO] Annotation processing is enabled because one or more processors were found on the class path. A future release of javac may disable annotation processing unless at least one processor is specified by name (-processor), or a search path is specified (--processor-path, --processor-module-path), or annotation processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] No processor claimed any of these annotations: /org.testng.annotations.BeforeClass,/org.testng.annotations.Test,/org.testng.annotations.DataProvider,/org.testng.annotations.BeforeMethod,/org.testng.annotations.AfterMethod [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,38] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[176,13] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[176,39] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[181,17] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[181,44] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[201,18] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[257,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[289,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[322,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[362,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[398,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[443,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[482,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[536,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [INFO] [INFO] --- surefire:2.22.3:test (default-test) @ genomicsdb --- [INFO] Tests are skipped. [INFO] [INFO] --- jar:3.3.0:jar (default-jar) @ genomicsdb --- [INFO] Building jar: /build/reproducible-path/genomicsdb-1.5.5/build/genomicsdb-1.5.5.jar [INFO] [INFO] --- jar:3.3.0:jar (main) @ genomicsdb --- [INFO] Building jar: /build/reproducible-path/genomicsdb-1.5.5/build/genomicsdb-1.5.5-main.jar [INFO] [INFO] --- jar:3.3.0:jar (spark) @ genomicsdb --- [INFO] Building jar: /build/reproducible-path/genomicsdb-1.5.5/build/genomicsdb-1.5.5-spark.jar [INFO] [INFO] --- antrun:3.1.0:run (replace-core-jar) @ genomicsdb --- [INFO] Executing tasks [INFO] [move] Moving 1 file to /build/reproducible-path/genomicsdb-1.5.5/build [INFO] [move] Moving 1 file to /build/reproducible-path/genomicsdb-1.5.5/build [INFO] Executed tasks [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 7.659 s [INFO] Finished at: 2025-10-30T22:43:09-12:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_build -O--buildsystem=cmake debian/rules override_dh_auto_test-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_test -a || true cd obj-x86_64-linux-gnu && make -j40 test ARGS\+=--verbose ARGS\+=-j40 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j40 UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end Connected to MAKE jobserver test 1 Start 1: test_array_schema 1: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_array_schema 1: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 1: Test timeout computed to be: 10000000 test 2 Start 2: test_print_array_schema 2: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_print_array_schema 2: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 2: Test timeout computed to be: 10000000 test 3 Start 3: test_print_book_keeping 3: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_print_book_keeping 3: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 3: Test timeout computed to be: 10000000 test 4 Start 4: test_sparse_array_benchmark 4: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_sparse_array_benchmark 4: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 4: Test timeout computed to be: 10000000 test 5 Start 5: test_array_iterator 5: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_array_iterator 5: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 5: Test timeout computed to be: 10000000 test 6 Start 6: test_array_schema_api 6: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_array_schema_api 6: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 6: Test timeout computed to be: 10000000 test 7 Start 7: test_dense_array_api 7: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_dense_array_api 7: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 7: Test timeout computed to be: 10000000 test 8 Start 8: test_sparse_array_api 8: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_sparse_array_api 8: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 8: Test timeout computed to be: 10000000 test 9 Start 9: test_tiledb_utils 9: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_tiledb_utils 9: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 9: Test timeout computed to be: 10000000 test 10 Start 10: test_codec 10: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_codec 10: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 10: Test timeout computed to be: 10000000 test 11 Start 11: test_codec_filter 11: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_codec_filter 11: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 11: Test timeout computed to be: 10000000 test 12 Start 12: test_expressions 12: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_expressions 12: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 12: Test timeout computed to be: 10000000 test 13 Start 13: test_filter_api 13: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_filter_api 13: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 13: Test timeout computed to be: 10000000 test 14 Start 14: test_mem_utils 14: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_mem_utils 14: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 14: Test timeout computed to be: 10000000 test 15 Start 15: test_uri 15: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_uri 15: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 15: Test timeout computed to be: 10000000 test 16 Start 16: test_utils 16: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_utils 16: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 16: Test timeout computed to be: 10000000 test 17 Start 17: test_posixfs 17: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_posixfs 17: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 17: Test timeout computed to be: 10000000 test 18 Start 18: test_storage_buffer 18: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_storage_buffer 18: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 18: Test timeout computed to be: 10000000 test 19 Start 19: ci_tests 19: Test command: /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/run_examples.sh "&&" "echo" "Running diff with expected_results" "&&" "diff" "log" "/build/reproducible-path/genomicsdb-1.5.5/examples/expected_results" "&&" "/build/reproducible-path/genomicsdb-1.5.5/examples/run_examples_parallel.sh" 19: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples 19: Test timeout computed to be: 10000000 test 20 Start 20: ctests 20: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests "-d" "yes" 20: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp 20: Test timeout computed to be: 10000000 test 21 Start 21: api_tests 21: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/api_tests "-d" "yes" 21: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp 21: Test timeout computed to be: 10000000 test 22 Start 22: tools_tests 22: Test command: /build/reproducible-path/genomicsdb-1.5.5/tests/test_tools.sh "/build/reproducible-path/genomicsdb-1.5.5/tests/inputs/vcfs" "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools" "1" 22: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools 22: Test timeout computed to be: 10000000 1: Randomness seeded to: 2429247174 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. 1: [TileDB::ArraySchema] Error: Cannot set cell order; Invalid cell order. 1: [TileDB::ArraySchema] Error: Unsupported. For a given VAR attribute, both compression and offsets_compression have to either have compression or not 1: . 1: [TileDB::ArraySchema] Error: Cannot set dimensions; No dimensions given. 1: [TileDB::ArraySchema] Error: Cannot set dimensions; The number of dimensions must be positive. 1: [TileDB::ArraySchema] Error: Cannot set dimensions; Duplicate dimension names. 1: [TileDB::ArraySchema] Error: Cannot set dimensions; Attribute name same as dimension name. 1: [TileDB::ArraySchema] Error: Cannot set types; Types not provided. 1: [TileDB::ArraySchema] Error: Cannot set types; Invalid type. 1: [TileDB::ArraySchema] Error: Cannot set domain; Domain not provided. 1: [TileDB::ArraySchema] Error: Cannot set tile order; Invalid tile order. 1: Array Schema Version: 1: 2 1: Array workspace: 1: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 1: Array name: 1: 1: Dimension names: 1: dim1 1: dim2 1: Attribute names: 1: test_attr 1: test_attr1 1: Domain: 1: dim1: [0,99] 1: dim2: [0,99] 1: Types: 1: test_attr: int32[1] 1: test_attr1: int32[var] 1: Coordinates: int32 1: Cell sizes (in bytes): 1: test_attr: 4 1: test_attr1: var 1: Coordinates: 8 1: Dense: 1: false 1: Tile types: 1: irregular 1: Tile order: 1: - 1: Cell order: 1: column-major 1: Capacity: 1: 10000 1: Tile extents: 1: - 1: Compression for test_attr 1: Type = GZIP 1: Level= -1 1: Compression for test_attr1 1: Type = GZIP 1: Level= -1 1: Compression for offsets of test_attr1 1: Type = GZIP + DELTA_ENCODE 1: Level= -1 1: Compression for Coordinates: 1: Type = GZIP 1: Array Schema Version: 1: 2 1: Array name: 1: this_array 1: Dimension names: 1: one_dim 1: Attribute names: 1: this_attribute 1: Domain: 1: one_dim: [1,100] 1: Types: 1: this_attribute: int32[1] 1: Coordinates: int32 1: Cell sizes (in bytes): 1: this_attribute: 4 1: Coordinates: 4 1: Dense: 1: false 1: Tile types: 1: regular 1: Tile order: 1: row-major 1: Cell order: 1: row-major 1: Capacity: 1: - 1: Tile extents: 1: one_dim: 25 1: Compression for this_attribute 1: Type = NONE 1: Level= -1 1: Compression for Coordinates: 1: Type = NONE 1: Array Schema Version: 1: 2 1: Array name: 1: this_array 1: Dimension names: 1: one_dim 1: Attribute names: 1: this_attribute 1: Domain: 1: one_dim: [1,100] 1: Types: 1: this_attribute: int32[1] 1: Coordinates: int32 1: Cell sizes (in bytes): 1: this_attribute: 4 1: Coordinates: 4 1: Dense: 1: false 1: Tile types: 1: regular 1: Tile order: 1: row-major 1: Cell order: 1: row-major 1: Capacity: 1: - 1: Tile extents: 1: one_dim: 25 1: Compression for this_attribute 1: Type = NONE 1: Level= -1 1: Compression for Coordinates: 1: Type = NONE 1: Array Schema Version: 1: 2 1: Array name: 1: this_array_64 1: Dimension names: 1: one_dim_64 1: Attribute names: 1: this_attribute 1: Domain: 1: one_dim_64: [1,1] 1: Types: 1: this_attribute: int64[1] 1: Coordinates: int64 1: Cell sizes (in bytes): 1: this_attribute: 8 1: Coordinates: 8 1: Dense: 1: false 1: Tile types: 1: regular 1: Tile order: 1: row-major 1: Cell order: 1: row-major 1: Capacity: 1: - 1: Tile extents: 1: one_dim_64: 25 1: Compression for this_attribute 1: Type = NONE 1: Level= -1 1: Compression for Coordinates: 1: Type = NONE 1: =============================================================================== 1: All tests passed (43 assertions in 7 test cases) 1: 2: No arguments specified 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: 3573239133 4: =============================================================================== 4: test cases: 1 | 1 passed 4: assertions: - none - 4: 6: Randomness seeded to: 784891193 6: =============================================================================== 6: All tests passed (335 assertions in 13 test cases) 6: 9: Randomness seeded to: 65439533 9: [TileDB::utils] Error: (set_working_dir) Failed to set_working_dir as /tmp/TileDBTestFqX05S/WORKSPACE.nonexistent does not exist 9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestSyCVWs/WORKSPACE errno=2(No such file or directory) 9: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=/tmp/TileDBTestSyCVWs/WORKSPACE errno=2(No such file or directory) 9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestqJVbDE/WORKSPACE errno=2(No such file or directory) 10: Randomness seeded to: 4021317020 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 10: [TileDB::Codec] Error: Could not decompress with GZIP. 10: [TileDB::utils] Error: (gzip_handle_error) Cannot decompress with GZIP: inflate error: Z_DATA_ERROR 10: [TileDB::Codec] Error: Could not decompress with GZIP. 10: [TileDB::Codec] Error: Codec for compression type=15 has already been registered. 10: =============================================================================== 10: All tests passed (31 assertions in 5 test cases) 10: 11: Randomness seeded to: 1400445467 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. 11: [TileDB::CodecFilter] Error: virtual method should be overridden. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: =============================================================================== 11: All tests passed (192 assertions in 2 test cases) 11: 12: Randomness seeded to: 2439974207 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 12: [TileDB::Expression] Error: (init) Attribute a2 in expression filter not present in the array schema 12: [TileDB::Expression] Error: (init) Parser SetExpr error for expression 'a1 === 22': Unexpected operator "=" found at position 5. 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: 2805146446 14: Thu Oct 30 22:43:10 2025 Memory stats Tracking memory usage START size=6MB resident=4MB share=3MB text=496KB lib=0 data=536KB dt=0 15: Randomness seeded to: 2549943578 15: =============================================================================== 15: All tests passed (131 assertions in 2 test cases) 15: 16: Randomness seeded to: 807818648 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 16: [TileDB::utils] Error: (RLE_compress_coords_row) Filed compressing coordinates with RLE; output buffer overflow 16: [TileDB::utils] Error: (RLE_compress_coords_col) Failed compressing coordinates with RLE; invalid buffer format 16: [TileDB::utils] Error: (RLE_compress_coords_col) Failed compressing coordinates with RLE; output buffer overflow 16: [TileDB::FileSystem] Error: (create_dir) Cannot create directory path=/non-existent-dir/dir errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/non-existent-dir/file errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=/non-existent-dir/file errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=/non-existent-dir/file errno=2(No such file or directory) 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: 1119110582 17: [TileDB::FileSystem] Error: (create_dir) Cannot create directory; Directory already exists path=/tmp/TileDBTestfXpQWN/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/TileDBTestfXpQWN/test_posixfs_dirdir errno=21(Is a directory) 17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTestfXpQWN/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: 957455563 18: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTestwMBXQx/test-file 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/tmp/TileDBTestwMBXQx/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/TileDBTestwMBXQx/test-file 18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestwMBXQx/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) 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: (gzip_write_buffer) Cannot write bytes path=/non-existent-file errno=13(Permission denied) 18: [TileDB::StorageBuffer] Error: (write_buffer) Cannot compress and/or 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) 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/non-existent-file errno=2(No such file or directory) 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/non-existent-file errno=2(No such file or directory) 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/non-existent-file errno=2(No such file or directory) 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/non-existent-file errno=2(No such file or directory) 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/TileDBTestZLKnCv/compressed_foo 1/22 Test #1: test_array_schema ................ Passed 0.04 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 0.01 sec 12: [TileDB::Expression] Error: (init) Parser SetExpr error for expression 'resolve(a1) &= ""': Too few parameters passed to function "resolve". 12: [TileDB::Expression] Error: (init) Expression parsing for dense arrays not yet implemented 12: =============================================================================== 12: All tests passed (3334 assertions in 83 test cases) 12: 9/22 Test #12: test_expressions ................. Passed 0.02 sec 19: Example 1: Running ./tiledb_workspace_group_create... 21: Randomness seeded to: 48342249 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-ws 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-ws errno=2(No such file or directory) 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws[TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-ws errno=2(No such file or directory) 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 19: Example 1: Done running ./tiledb_workspace_group_create 19: Example 2: Running ./tiledb_ls_workspaces... 19: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=&& errno=2(No such file or directory) 19: Example 2: Done running ./tiledb_ls_workspaces 19: Example 3: Running ./tiledb_array_create_dense... 13: Randomness seeded to: 2613316247 13: =============================================================================== 13: All tests passed (317 assertions in 3 test cases) 13: 10/22 Test #13: test_filter_api .................. Passed 0.05 sec 19: Example 3: Done running ./tiledb_array_create_dense 19: Example 4: Running ./tiledb_array_create_sparse... 19: Example 4: Done running ./tiledb_array_create_sparse 19: Example 5: Running ./tiledb_array_primitive... 20: 22:43:11.028 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:11.028 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:11.028 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 20: Randomness seeded to: 1755063630 20: 0.126 s: Check loader configuration with json file 20: 22:43:11.029 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:11.029 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:11.029 DEBUG NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.030 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:11.030 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:11.030 DEBUG NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.031 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:11.031 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:11.031 DEBUG NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.033 INFO NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.033 INFO NativeGenomicsDB - pid=60927 tid=60927 This is a test 20: 22:43:11.033 WARN NativeGenomicsDB - pid=60927 tid=60927 This is a test 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 This is a test 20: 22:43:11.033 DEBUG NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.033 INFO NativeGenomicsDB - pid=60927 tid=60927 i=1 str=This is a test 20: 22:43:11.033 WARN NativeGenomicsDB - pid=60927 tid=60927 i=2 str=This is a test 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 i=3 str=This is a test 20: 22:43:11.033 DEBUG NativeGenomicsDB - pid=60927 tid=60927 i=4 str=This is a test 20: 22:43:11.033 INFO NativeGenomicsDB - pid=60927 tid=60927 i=6 str=This is a once_only test 20: 22:43:11.033 WARN NativeGenomicsDB - pid=60927 tid=60927 i=7 str=This is a once_only test 20: 0.000 s: test logger format 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 i=1 str=This is a test 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Test Exception 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Test Exception 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Test Exception 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Native Stack Trace: 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x5617ab96afb2] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa4be6) [0x5617ab95bbe6] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x5617abb0f51c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x5617abb10018] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x5617abb1047a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x5617abae3653] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x5617abae393c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x5617ab93159e] 20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7fdacca33ca8] 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Test Exception 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Native Stack Trace: 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x5617ab96afb2] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa4c09) [0x5617ab95bc09] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x5617abb0f51c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x5617abb10018] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x5617abb1047a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x5617abae3653] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x5617abae393c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x5617ab93159e] 20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7fdacca33ca8] 20: 0.000 s: test logger exceptions 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x5617ab96afb2] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa7d3a) [0x5617ab95ed3a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x5617abb0f51c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x5617abb10018] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x5617abb1047a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x5617abae3653] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x5617abae393c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x5617ab93159e] 20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7fdacca33ca8] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x5617ab96afb2] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa7d60) [0x5617ab95ed60] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x5617abb0f51c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x5617abb10018] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x5617abb1047a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x5617abae3653] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x5617abae393c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x5617ab93159e] 20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7fdacca33ca8] 20: This is a test 20: 0.000 s: test explicit logger 20: 22:43:11.034 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:11.034 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:11.034 DEBUG NativeGenomicsDB - pid=60927 tid=60927 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) 17: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=non-existent-dir errno=2(No such file or directory) 19: Array name: my_workspace/dense_arrays/my_array_A 19: Attributes: a1 a2 a3 19: The array is dense 19: Array name: my_workspace/sparse_arrays/my_array_B 19: Attributes: a1 a2 a3 19: The array is sparse 19: Example 5: Done running ./tiledb_array_primitive 20: 0.070 s: gvcf iterator 20: 22:43:11.104 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:11.104 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:11.104 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 19: Example 6: Running ./tiledb_array_write_dense_1... 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 0.586 s: utils 21: 0.000 s: api empty_args 16: =============================================================================== 16: All tests passed (86 assertions in 6 test cases) 16: 11/22 Test #16: test_utils ....................... Passed 0.61 sec 20: 0.209 s: columnar_gvcf_iterator_test 21: 0.019 s: api query_variants direct DP 21: 0.007 s: api query_variants direct DP with huge row range 21: 0.007 s: api query_variants direct DP with huge disjoint row ranges 21: 0.011 s: api query_variants direct DP with range composed of multiple points 21: 0.011 s: api query_variants direct DP with range composed of overlapping ranges 21: 22:43:11.367 ERROR NativeGenomicsDB - pid=60929 tid=60929 Query interval 0:-100-1 is out of bounds 21: 0.006 s: api query_variants direct DP with invalid row range 21: 0.015 s: api query_variants direct DP and GT 9: 7e820c3ee657b1a27a56a7be9d202a7a7e820c3ee657b1a27a56a7be9d202a7a[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestG9gfWy/test_file 9: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestG9gfWy/test_file 20: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 hts_plugin could not find /tmp/GenomicsDBJRab39 20: [TileDB] Error: No TileDB support for URL=dfdfd://ddd. 20: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 htslib_plugin could not open dfdfd://ddd 20: No TileDB support for URL=dfdfd://ddd 20: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 hts_plugin could not find /tmp/GenomicsDBJRab39/foo 20: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 hts_plugin could not find /tmp/GenomicsDBJRab39/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: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 0.123 s: test htslib plugin 20: 0.000 s: alleles_combiner 20: 0.000 s: gt_remapper 21: 0.068 s: api query_variants direct DP and GT with PP 21: 22:43:11.451 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.451 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.451 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:11.459 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.459 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.460 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:11.470 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.470 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.470 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.020 s: api query_variants with json 21: 22:43:11.470 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.470 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.471 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/ws/t0_1_2/.__consolidation_lock 21: 22:43:11.484 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.484 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.484 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:11.496 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.496 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.496 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.027 s: api query variants with json string 17: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/tmp/TileDBTestHMv4qR/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/TileDBTestQXgxmj/test_posixfs_dirread_write/foo 17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestQXgxmj/test_posixfs_dirread_write/foo 17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestQXgxmj/test_posixfs_dirread_write/foo 21: 22:43:11.697 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.697 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.698 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 14: Thu Oct 30 22:43:11 2025 Memory stats Tracking memory usage END size=6MB resident=4MB share=4MB text=496KB lib=0 data=536KB dt=0 14: Test rusage 14: user cpu time=0seconds 0microseconds 14: sys cpu time=0seconds 2143microseconds 14: maximum resident set size: 4064KB 14: =============================================================================== 14: test cases: 1 | 1 passed 14: assertions: - none - 14: 12/22 Test #14: test_mem_utils ................... Passed 1.00 sec 21: 0.215 s: api query variants with enabled shared posixfs optimizations 9: =============================================================================== 9: All tests passed (10488239 assertions in 9 test cases) 9: 13/22 Test #9: test_tiledb_utils ................ Passed 1.20 sec 21: ---------------- 21: Interval:[0,9223372036854775806] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 21: 0.278 s: api query_variant_calls direct 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 0.025 s: api query_variant_calls direct DP and GT 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0|0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 0.025 s: api query_variant_calls direct DP and GT with PP 21: 22:43:12.041 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.041 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.041 DEBUG NativeGenomicsDB - pid=60929 tid=60929 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: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 21: 22:43:12.050 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.050 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.051 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.057 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.057 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.057 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.017 s: api query_variant_calls with json 21: 22:43:12.058 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.058 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.058 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.058 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.058 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.059 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.059 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.067 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.067 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.067 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.068 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.068 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.068 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.068 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.077 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.077 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.077 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.077 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.077 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.078 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.078 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.006 s: Try query with contig intervals instead of tiledb column intervals 21: 0.026 s: api query_variant_calls with protobuf 21: 22:43:12.083 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.083 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.083 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.084 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.084 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.084 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.084 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.093 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.093 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.093 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.093 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.093 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.093 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.093 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.102 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.102 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.102 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.103 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.103 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.103 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.103 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.006 s: Try query with a filter 21: 0.025 s: api query_variant_calls with protobuf 21: 22:43:12.108 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.108 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.109 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.109 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.109 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.109 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.109 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.118 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.118 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.118 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.119 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.119 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.119 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.119 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.130 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.130 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.131 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.131 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.131 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.131 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.132 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.013 s: Try query with a filter and workspace with GT ploidy 21: 0.035 s: api query_variant_calls with protobuf 21: 22:43:12.143 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.144 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.144 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.145 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.145 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.145 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.145 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.163 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.163 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.163 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.164 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.164 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.164 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.164 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.180 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.180 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.181 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.181 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.181 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.181 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.181 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.008 s: Try query with a filter and a small segment size to force TileDB buffers overflow 21: 0.045 s: api query_variant_calls with protobuf 21: 22:43:12.188 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.188 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.189 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.189 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.189 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.190 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.190 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.200 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.200 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.200 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.201 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.201 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.201 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.201 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 17: [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) 17: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) 21: 22:43:12.213 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.213 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.213 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.214 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.214 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.214 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.214 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 19: Example 6: Done running ./tiledb_array_write_dense_1 19: Example 7: Running ./tiledb_array_write_sparse_1... 21: 0.015 s: Try query with POS and ROW with no match 21: 0.040 s: api query_variant_calls with protobuf 21: 22:43:12.228 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.228 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.229 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.229 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.229 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.229 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.229 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 17: [TileDB::FileSystem] Error: (read_from_file) Cannot open simultaneously for reads/writes path=test_posixfs_dir_locking/foo 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 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 17: =============================================================================== 17: All tests passed (258 assertions in 11 test cases) 17: 14/22 Test #17: test_posixfs ..................... Passed 1.54 sec 21: 22:43:12.246 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.246 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.246 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.247 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.247 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.247 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.247 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 19: Example 7: Done running ./tiledb_array_write_sparse_1 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.267 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.267 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.268 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.269 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.269 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.269 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.269 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 5: Randomness seeded to: 3493341140 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: 15/22 Test #5: test_array_iterator .............. Passed 1.59 sec 21: 0.013 s: Try query with POS and ROW 21: 0.053 s: api query_variant_calls with protobuf 21: 22:43:12.281 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.281 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.281 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.282 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.282 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.282 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.282 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.300 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.300 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.300 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.301 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.301 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.302 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.302 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.320 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.320 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.320 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.321 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.321 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.321 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.321 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.014 s: Try query with ISHOMREF 21: 0.053 s: api query_variant_calls with protobuf 21: 22:43:12.334 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.334 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.334 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.335 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.335 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.335 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.335 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.353 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.354 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.354 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.354 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.354 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.355 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.355 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.365 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.365 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.365 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.366 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.366 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.366 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.366 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.008 s: Try query with ISHOMREF 21: 0.039 s: api query_variant_calls with protobuf 21: 22:43:12.373 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.373 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.373 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.373 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.373 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.374 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.374 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.383 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.383 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.384 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.384 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.384 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.384 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.384 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.394 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.394 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.394 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.395 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.395 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.395 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.395 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.008 s: Try query with ISHOMREF 21: 0.029 s: api query_variant_calls with protobuf 21: 22:43:12.402 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.402 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.402 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.403 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.403 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.403 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.403 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.413 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.413 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.413 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.414 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.414 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.414 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.414 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 18: =============================================================================== 18: All tests passed (450703 assertions in 3 test cases) 18: 16/22 Test #18: test_storage_buffer .............. Passed 1.72 sec 21: 22:43:12.424 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.424 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.424 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.425 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.425 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.425 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.425 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.008 s: Try query with ISHOMREF 21: 0.030 s: api query_variant_calls with protobuf 21: 0.006 s: Base configuration 21: 0.006 s: api query_variant_calls with protobuf and config 21: 22:43:12.439 ERROR NativeGenomicsDB - pid=60929 tid=60929 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: 0.005 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: 0.006 s: Test filter test for 0 21: 0.006 s: api query_variant_calls with protobuf new 21: 0.006 s: Test filter test for 1 21: 0.006 s: api query_variant_calls with protobuf new 21: 0.006 s: Test filter test for 2 21: 0.006 s: api query_variant_calls with protobuf new 21: 0.006 s: Test filter test for 3 21: 0.006 s: api query_variant_calls with protobuf new 21: 273 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"REF":["C","G"],"GT":["C/C","G/A"],"DP":[null,null]},"HG01530":{"CHR":["1"],"POS":[17385],"REF":["G"],"GT":["G/A"],"DP":[76]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"REF":["C","G"],"GT":["C/C","T/T"],"DP":[null,120]}} 21: 21: 207 {"FIELD":["CHR","POS","REF","GT","DP"],"HG00141":[["1",12141,"C","C/C",null],["1",17385,"G","G/A",null]],"HG01530":[["1",17385,"G","G/A",76]],"HG01958":[["1",12145,"C","C/C",null],["1",17385,"G","T/T",120]]} 21: 21: 37 {"HG00141":2,"HG01530":1,"HG01958":2} 21: 21: 15 {"num_calls":5} 21: 21: 15 {"num_calls":5} 21: 21: 31 ["HG00141","HG01530","HG01958"] 21: 21: 1999 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"REF":["C","G"],"QUAL":[null,475.7699890136719],"FILTER":[null,"0"],"DP":[null,null],"BaseQRankSum":[null,-2.0959999561309816],"ClippingRankSum":[null,-1.8589999675750733],"DS":["1","1"],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MLEAC":[null,"1, 5"],"MLEAF":[null,"0.500000, 1.200000"],"MQ":[null,31.719999313354493],"RAW_MQ":[null,5.5],"MQ0":[null,8],"MQRankSum":[null,-0.32899999618530276],"ReadPosRankSum":[null,0.004999999888241291],"PGT":[null,"0|1"],"PID":[null,"17385_G_A"],"AD":[null,"58, 22, 17"],"DP_FORMAT":[2,80],"GQ":[0,99],"GT":["C/C","G/A"],"MIN_DP":[0,null],"PL":["0, 0, 0","504, 0, 9807, 678, 1870, 2548"],"SB":[null,"58, 0, 22, 0"]},"HG01530":{"CHR":["1"],"POS":[17385],"REF":["G"],"QUAL":[989.77001953125],"FILTER":[null],"DP":[76],"BaseQRankSum":[1.0460000038146973],"ClippingRankSum":[-2.242000102996826],"DS":[null],"HaplotypeScore":[null],"InbreedingCoeff":[null],"MLEAC":["1, 0"],"MLEAF":["0.500000, 0.000000"],"MQ":[59.369998931884769],"RAW_MQ":[null],"MQ0":[0],"MQRankSum":[-0.4320000112056732],"ReadPosRankSum":[2.055000066757202],"PGT":[null],"PID":[null],"AD":["40, 36, 0"],"DP_FORMAT":[76],"GQ":[99],"GT":["G/A"],"MIN_DP":[null],"PL":["1018, 0, 1116, 1137, 1224, 2361"],"SB":["9, 31, 13, 23"]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"REF":["C","G"],"QUAL":[null,3302.77001953125],"FILTER":[null,"0"],"DP":[null,120],"BaseQRankSum":[null,-2.0739998817443849],"ClippingRankSum":[null,0.5550000071525574],"DS":["1",null],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MLEAC":[null,"2, 7"],"MLEAF":[null,"1.000000, 0.700000"],"MQ":[null,29.81999969482422],"RAW_MQ":[null,2.5],"MQ0":[null,3],"MQRankSum":[null,-1.36899995803833],"ReadPosRankSum":[null,-0.10100000351667404],"PGT":[null,"0|1"],"PID":[null,"17385_G_T"],"AD":[null,"0, 120, 37"],"DP_FORMAT":[3,120],"GQ":[0,99],"GT":["C/C","T/T"],"MIN_DP":[0,null],"PL":["0, 0, 0","3336, 358, 0, 4536, 958, 7349"],"SB":[null,"0, 0, 0, 0"]}} 21: 21: 0.042 s: api query_variant_calls with JSONVariantCallProcessor 21: 0.000 s: Test genomicsdb demo test case 21: 0.020 s: api generate_vcf direct 21: 22:43:12.551 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.551 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.551 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.009 s: api generate_vcf with json 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61164 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61164 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61165 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61165 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61163 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61162 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61162 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61167 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61167 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61164 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61169 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61169 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61163 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61166 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61166 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61162 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61165 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61168 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61168 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61167 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61169 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61166 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61163 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61168 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.019 s: api generate_vcf with json multiple threads 21: 22:43:12.579 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.579 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.579 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.580 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.580 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.580 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.580 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.588 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.588 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.588 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.588 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.588 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.589 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.589 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.596 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.596 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.596 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.597 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.597 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.597 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.597 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: ---------------- 21: Interval:[0,1000000000] 21: 21: 0.019 s: api annotate query_variant_calls with test datasource 0 21: =============================================================================== 21: All tests passed (1548 assertions in 26 test cases) 21: 17/22 Test #21: api_tests ........................ Passed 1.89 sec 20: 22:43:13.453 INFO NativeGenomicsDB - pid=60927 tid=60927 Plink progress 3452039 / 6904084 = 50.00% 20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG00141 row: 0 column: 12277 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG00141 row: 0 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG01958 row: 1 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG00141 row: 0 column: 12399 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG01958 row: 1 column: 12399 contains a negative value or otherwise did not parse, full string: 0, 1, -2147483648 20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 WARN NativeGenomicsDB - pid=60927 tid=60927 GL probabilities at sample: HG01958 row: 1 column: 12499 sum to 0.8981071705534972, expected near 1. Generated BGEN may be invalid 20: 2.387 s: test bgen 20: 22:43:13.823 ERROR NativeGenomicsDB - pid=60927 tid=60927 VariantStorageManagerException exception : Could not open workspace 20: 22:43:13.823 ERROR NativeGenomicsDB - pid=60927 tid=60927 Could not open array non_existent_array in workspace /tmp/GenomicsDBrtQEzr/ws 20: 22:43:13.823 ERROR NativeGenomicsDB - pid=60927 tid=60927 VariantQueryProcessorException : Could not open array non_existent_array at workspace /tmp/GenomicsDBrtQEzr/ws 20: 0.000 s: constructor 20: 22:43:13.823 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:13.823 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:13.823 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 20: 22:43:13.829 ERROR NativeGenomicsDB - pid=60927 tid=60927 Invalid query attribute : non_existent_attribute 20: 0.006 s: test basic queries 20: 22:43:13.829 INFO NativeGenomicsDB - pid=60927 tid=60927 Mem usage Check basic memory usage rss=50M 20: 0.000 s: check basic memory usage 20: =============================================================================== 20: All tests passed (1439 assertions in 34 test cases) 20: 20: 22:43:13.829 DEBUG NativeGenomicsDB - pid=60927 tid=60927 Deleting htslib_fs_adapter tiledb_ctx_map 18/22 Test #20: ctests ........................... Passed 3.13 sec 7: Randomness seeded to: 410320414 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... 8: Randomness seeded to: 3459830065 19: Example 10: Done running ./tiledb_array_write_dense_2 8: 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] =============================================================================== 8: All tests passed (11647013 assertions in 15 test cases) 8: 19/22 Test #8: test_sparse_array_api ............ Passed 12.65 sec 19: Example 11: 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 11: Done running ./tiledb_array_read_dense_1 19: Example 12: Running ./tiledb_array_read_dense_2... 19: a1 19: ---- 19: Reading cells... 19: 9 19: 11 19: 12 19: Reading cells... 19: 13 19: 14 19: 15 19: Example 12: Done running ./tiledb_array_read_dense_2 19: Example 13: Running ./tiledb_array_write_dense_sorted... 19: Example 13: Done running ./tiledb_array_write_dense_sorted 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 (150274626 assertions in 4 test cases) 7: 20/22 Test #7: test_dense_array_api ............. Passed 16.89 sec 22: Build with DISABLE_MPI option set, not running gt_mpi_gather tests 21/22 Test #22: tools_tests ...................... Passed 20.32 sec 19: Example 14: 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 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 19: Example 16: 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: 112 M (112.1, 112.2) 19: 113 NN (113.1, 113.2) 19: 114 OOO (114.1, 114.2) 19: 115 PPPP (115.1, 115.2) 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 19: Example 18: 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: 208 u (208.1, 208.2) 19: 9 jj ( 9.1, 9.2) 19: 10 kkk ( 10.1, 10.2) 19: 211 wwww (211.1, 211.2) 19: 212 x (212.1, 212.2) 19: 213 yy (213.1, 213.2) 19: 114 OOO (114.1, 114.2) 19: 115 PPPP (115.1, 115.2) 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 19: Example 20: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (1, 1) 0 a ( 0.1, 0.2) 19: (1, 2) 1 bb ( 1.1, 1.2) 19: (1, 4) 2 ccc ( 2.1, 2.2) 19: (2, 3) 3 dddd ( 3.1, 3.2) 19: (3, 1) 4 e ( 4.1, 4.2) 19: (4, 2) 5 ff ( 5.1, 5.2) 19: (3, 3) 6 ggg ( 6.1, 6.2) 19: (3, 4) 7 hhhh ( 7.1, 7.2) 19: Example 20: Done running ./tiledb_array_read_sparse_1 19: Example 21: Running ./tiledb_array_read_sparse_filter_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: Example 21: Done running ./tiledb_array_read_sparse_filter_1 19: Example 22: Running ./tiledb_array_iterator_sparse... 19: a1 19: ---- 19: 5 19: 6 19: 7 19: Example 22: Done running ./tiledb_array_iterator_sparse 19: Example 23: Running ./tiledb_array_iterator_sparse_filter... 19: a1 19: ---- 19: 6 19: 7 19: Example 23: Done running ./tiledb_array_iterator_sparse_filter 19: Example 24: Running ./tiledb_array_read_sparse_2... 19: a1 19: ---- 19: Reading cells... 19: 5 19: 6 19: Reading cells... 19: 7 19: Example 24: Done running ./tiledb_array_read_sparse_2 19: Example 25: Running ./tiledb_array_read_sparse_filter_2... 19: a1 19: ---- 19: Reading cells... 19: 6 19: Reading cells... 19: 7 19: Example 25: Done running ./tiledb_array_read_sparse_filter_2 19: Example 26: Running ./tiledb_array_write_sparse_2... 19: Example 26: Done running ./tiledb_array_write_sparse_2 19: Example 27: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (1, 1) 0 a ( 0.1, 0.2) 19: (1, 2) 1 bb ( 1.1, 1.2) 19: (1, 4) 2 ccc ( 2.1, 2.2) 19: (2, 3) 3 dddd ( 3.1, 3.2) 19: (3, 1) 4 e ( 4.1, 4.2) 19: (4, 2) 5 ff ( 5.1, 5.2) 19: (3, 3) 6 ggg ( 6.1, 6.2) 19: (3, 4) 7 hhhh ( 7.1, 7.2) 19: Example 27: Done running ./tiledb_array_read_sparse_1 19: Example 28: Running ./tiledb_array_read_sparse_2... 19: a1 19: ---- 19: Reading cells... 19: 5 19: 6 19: Reading cells... 19: 7 19: Example 28: Done running ./tiledb_array_read_sparse_2 19: Example 29: Running ./tiledb_array_read_sparse_filter_2... 19: a1 19: ---- 19: Reading cells... 19: 6 19: Reading cells... 19: 7 19: Example 29: Done running ./tiledb_array_read_sparse_filter_2 19: Example 30: Running ./tiledb_array_update_sparse_1... 19: Example 30: Done running ./tiledb_array_update_sparse_1 19: Example 31: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (1, 1) 0 a ( 0.1, 0.2) 19: (1, 2) 1 bb ( 1.1, 1.2) 19: (1, 4) 2 ccc ( 2.1, 2.2) 19: (2, 3) 3 dddd ( 3.1, 3.2) 19: (3, 1) 4 e ( 4.1, 4.2) 19: (3, 2) 104 u (104.1, 104.2) 19: (4, 1) 105 vvvv (105.1, 105.2) 19: (4, 2) 5 ff ( 5.1, 5.2) 19: (3, 3) 106 w (106.1, 106.2) 19: (3, 4) 107 yyy (107.1, 107.2) 19: Example 31: Done running ./tiledb_array_read_sparse_1 19: Example 32: Running ./tiledb_array_read_sparse_filter_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (4, 1) 105 vvvv (105.1, 105.2) 19: Example 32: Done running ./tiledb_array_read_sparse_filter_1 19: Example 33: Running ./tiledb_array_read_sparse_filter_2... 19: a1 19: ---- 19: Reading cells... 19: Reading cells... 19: 106 19: 107 19: Example 33: Done running ./tiledb_array_read_sparse_filter_2 19: Example 34: Running ./tiledb_array_iterator_sparse... 19: a1 19: ---- 19: 104 19: 5 19: 106 19: 107 19: Example 34: Done running ./tiledb_array_iterator_sparse 19: Example 35: Running ./tiledb_array_iterator_sparse_filter... 19: a1 19: ---- 19: 104 19: 106 19: 107 19: Example 35: Done running ./tiledb_array_iterator_sparse_filter 19: Example 36: Running ./tiledb_array_read_sparse_2... 19: a1 19: ---- 19: Reading cells... 19: 104 19: 5 19: Reading cells... 19: 106 19: 107 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 19: Example 38: 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: 208 u (208.1, 208.2) 19: 9 jj ( 9.1, 9.2) 19: 10 kkk ( 10.1, 10.2) 19: 211 wwww (211.1, 211.2) 19: 212 x (212.1, 212.2) 19: 213 yy (213.1, 213.2) 19: 114 OOO (114.1, 114.2) 19: 115 PPPP (115.1, 115.2) 19: Example 38: Done running ./tiledb_array_read_dense_1 19: Example 39: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (1, 1) 0 a ( 0.1, 0.2) 19: (1, 2) 1 bb ( 1.1, 1.2) 19: (1, 4) 2 ccc ( 2.1, 2.2) 19: (2, 3) 3 dddd ( 3.1, 3.2) 19: (3, 1) 4 e ( 4.1, 4.2) 19: (3, 2) 104 u (104.1, 104.2) 19: (4, 1) 105 vvvv (105.1, 105.2) 19: (4, 2) 5 ff ( 5.1, 5.2) 19: (3, 3) 106 w (106.1, 106.2) 19: (3, 4) 107 yyy (107.1, 107.2) 19: Example 39: Done running ./tiledb_array_read_sparse_1 19: Example 40: Running ./tiledb_array_read_dense_2... 19: a1 19: ---- 19: Reading cells... 19: 9 19: 211 19: 212 19: Reading cells... 19: 213 19: 114 19: 115 19: Example 40: Done running ./tiledb_array_read_dense_2 19: Example 41: Running ./tiledb_array_read_sparse_2... 19: a1 19: ---- 19: Reading cells... 19: 104 19: 5 19: Reading cells... 19: 106 19: 107 19: Example 41: Done running ./tiledb_array_read_sparse_2 19: Example 42: Running ./tiledb_array_3d... 19: 4 results 19: coords a1 a2 19: ----------------------- 19: 0, 0, 0 0 first 19: 0, 0, 1 1 second 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 57.81 sec 100% tests passed, 0 tests failed out of 22 Total Test time (real) = 57.84 sec make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' debian/rules override_dh_auto_test-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_build cd obj-x86_64-linux-gnu && make -j40 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/depend make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/depend make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/build 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". 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Consolidate compiler generated dependencies of target genomicsdb-hts [ 0%] Built target protobuf_ep make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/depend make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/resources /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources 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Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". 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Consolidate compiler generated dependencies of target tiledb_shared Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". 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/genomicsdb/variant_field_handler.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". 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/loader/genomicsdb_importer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". 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Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". [ 25%] Built target tiledb_static Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/depend [ 26%] Built target tiledb_shared 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 make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make 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/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu 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Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu 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"--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" make -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 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Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/compiler_depend.internal". make -f genomicsdb-tiledb/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_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" make -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/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_print_book_keeping Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" 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-1.5.5/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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.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 Consolidate compiler generated dependencies of target test_sparse_array_benchmark Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_print_array_schema Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_sparse_array_api Consolidate compiler generated dependencies of target test_dense_array_api Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_array_iterator make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target test_expressions make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_array_schema make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build Consolidate compiler generated dependencies of target test_tiledb_utils make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_codec 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 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_array_schema_api Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_filter_api Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_mem_utils Consolidate compiler generated dependencies of target test_uri Consolidate compiler generated dependencies of target test_utils 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-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". 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_create_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_aio_write_dense Consolidate compiler generated dependencies of target tiledb_array_consolidate make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_3d make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build Consolidate compiler generated dependencies of target tiledb_array_aio_read_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_codec_filter make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_create_dense Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_posixfs 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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". make -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_consolidate_dense Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse_filter make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.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-1.5.5/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-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build'. Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_parallel_read_mpi_io_dense Consolidate compiler generated dependencies of target tiledb_array_create_sparse Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_iterator_dense Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_sparse make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build'. Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build'. Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build'. Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_primitive make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 27%] Built target test_array_iterator [ 27%] Built target test_expressions [ 27%] Built target test_print_book_keeping [ 28%] Built target test_sparse_array_benchmark [ 29%] Built target test_print_array_schema [ 30%] Built target test_tiledb_utils [ 31%] Built target test_dense_array_api [ 31%] Built target test_array_schema [ 32%] Built target test_codec [ 32%] Built target test_mem_utils [ 32%] Built target test_uri [ 33%] Built target test_sparse_array_api [ 33%] Built target test_codec_filter [ 34%] Built target test_filter_api 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 [ 35%] Built target test_array_schema_api 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_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/depend [ 35%] Built target tiledb_array_aio_read_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" [ 36%] Built target test_utils 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 [ 37%] Built target tiledb_array_consolidate make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" [ 38%] Built target tiledb_array_3d make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" [ 39%] Built target tiledb_array_aio_write_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" [ 39%] Built target tiledb_array_create_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" make -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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend [ 40%] Built target tiledb_array_parallel_consolidate_dense [ 40%] Built target tiledb_array_iterator_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" 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 [ 41%] Built target tiledb_array_iterator_sparse_filter make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" [ 42%] Built target tiledb_array_parallel_read_mpi_io_dense [ 42%] Built target test_storage_buffer make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" [ 43%] Built target tiledb_array_parallel_read_dense_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_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 [ 44%] Built target tiledb_array_create_sparse 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 Consolidate compiler generated dependencies of target GenomicsDB_library_object_files [ 45%] Built target tiledb_array_parallel_write_dense_2 [ 45%] Built target tiledb_array_parallel_read_sparse_1 [ 45%] Built target test_posixfs [ 46%] Built target tiledb_array_parallel_consolidate_sparse [ 46%] Built target tiledb_array_parallel_read_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" [ 46%] Built target tiledb_array_iterator_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" [ 47%] Built target tiledb_array_parallel_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend [ 48%] Built target tiledb_array_parallel_write_dense_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend [ 48%] Built target tiledb_array_parallel_write_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" [ 49%] Built target tiledb_array_parallel_write_sparse_1 [ 50%] Built target tiledb_array_primitive make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.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_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" 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_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target tiledb_array_read_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_dense_3 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_dense_sorted Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_1 Consolidate compiler generated dependencies of target tiledb_array_read_sparse_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_sparse_sorted 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 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_sparse_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". 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 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_write_dense_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_update_dense_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_update_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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build Consolidate compiler generated dependencies of target tiledb_array_update_sparse_1 Consolidate compiler generated dependencies of target tiledb_array_update_sparse_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build Consolidate compiler generated dependencies of target tiledb_array_write_dense_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_write_sparse_1 Consolidate compiler generated dependencies of target tiledb_array_write_dense_sorted make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build Consolidate compiler generated dependencies of target tiledb_array_write_sparse_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_clear_delete_move make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_write_sparse_4 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_write_sparse_3 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". 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_config.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". 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 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". 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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_catching_errors Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". 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 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". make -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_metadata_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_config make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_ls Consolidate compiler generated dependencies of target tiledb_metadata_iterator make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build Consolidate compiler generated dependencies of target tiledb_delete Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_metadata_consolidate make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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_update.dir/src/tiledb_metadata_update.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". 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_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_ls_workspaces Consolidate compiler generated dependencies of target tiledb_metadata_create 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_metadata_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_metadata_write make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_metadata_read Consolidate compiler generated dependencies of target tiledb_metadata_update make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.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-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_metadata_primitive Consolidate compiler generated dependencies of target tiledb_workspace_group_create make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 50%] Built target tiledb_array_read_sparse_filter_1 [ 52%] Built target tiledb_array_read_dense_sorted [ 52%] Built target tiledb_array_read_sparse_1 [ 52%] Built target tiledb_array_read_dense_1 [ 67%] Built target GenomicsDB_library_object_files [ 68%] Built target tiledb_array_read_dense_3 [ 69%] Built target tiledb_array_update_dense_2 [ 69%] Built target tiledb_array_update_dense_1 make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/depend [ 69%] Built target tiledb_array_read_dense_2 make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/depend [ 70%] Built target tiledb_array_read_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" [ 71%] Built target tiledb_array_read_sparse_sorted make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" [ 72%] Built target tiledb_array_read_sparse_filter_2 [ 72%] Built target tiledb_array_write_sparse_2 [ 73%] Built target tiledb_array_write_sparse_1 [ 73%] Built target tiledb_array_write_dense_2 [ 74%] Built target tiledb_array_write_dense_1 [ 75%] Built target tiledb_array_update_sparse_2 [ 75%] Built target tiledb_array_update_sparse_1 [ 76%] Built target tiledb_array_write_dense_sorted [ 77%] Built target tiledb_array_write_sparse_3 [ 78%] Built target tiledb_clear_delete_move [ 80%] Built target tiledb_metadata_iterator [ 80%] Built target tiledb_metadata_consolidate [ 80%] Built target tiledb_metadata_write [ 80%] Built target tiledb_ls_workspaces [ 80%] Built target tiledb_array_write_sparse_4 [ 82%] Built target tiledb_metadata_update [ 82%] Built target tiledb_catching_errors [ 83%] Built target tiledb_ls [ 83%] Built target tiledb_config [ 83%] Built target tiledb_metadata_create [ 84%] Built target tiledb_delete [ 84%] Built target tiledb_metadata_read [ 85%] Built target tiledb_workspace_group_create [ 86%] Built target tiledb_metadata_primitive Dependencies file "src/main/CMakeFiles/tiledbgenomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledbgenomicsdb make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/tiledbgenomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target genomicsdb 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 [ 86%] Built target tiledbgenomicsdb make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/depend make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/depend make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.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-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.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-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb_init.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcfdiff.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf_histogram.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target create_genomicsdb_workspace Dependencies file "tools/CMakeFiles/gt_mpi_gather.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "example/CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/compiler_depend.internal". Dependencies file "example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "example/CMakeFiles/test_genomicsdb_importer.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/build Consolidate compiler generated dependencies of target consolidate_genomicsdb_array Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target vcf2genomicsdb Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_genomicsdb_demo Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target vcf_histogram Consolidate compiler generated dependencies of target vcfdiff Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target vcf2genomicsdb_init Consolidate compiler generated dependencies of target test_genomicsdb_bcf_generator Consolidate compiler generated dependencies of target api_tests make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/build 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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target gt_mpi_gather make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/build Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_genomicsdb_importer make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/create_genomicsdb_workspace.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/build Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/build make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/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 -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/consolidate_genomicsdb_array.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcfdiff.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf_histogram.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb_init.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/gt_mpi_gather.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target genomicsdbjni make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/api_tests.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_importer.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdbjni.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target create_genomicsdb_workspace [ 87%] Built target consolidate_genomicsdb_array [ 88%] Built target vcf2genomicsdb [ 88%] Built target test_genomicsdb_demo [ 89%] Built target vcfdiff [ 90%] Built target vcf_histogram [ 90%] Built target vcf2genomicsdb_init [ 91%] Built target test_genomicsdb_bcf_generator [ 92%] Built target api_tests [ 93%] Built target gt_mpi_gather [ 94%] Built target test_genomicsdb_importer Consolidate compiler generated dependencies of target ctests make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build [ 95%] Built target genomicsdbjni make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/ctests.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [100%] Built target ctests make[3]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' # Testing the Java part. We extend LD_LIBRARY_PATH because some test code is # run without surefire. LD_LIBRARY_PATH=":obj-x86_64-linux-gnu/src/main" dh_auto_test --buildsystem=maven /usr/lib/jvm/default-java/bin/java -noverify -cp /usr/share/maven/boot/plexus-classworlds-2.x.jar -Dmaven.home=/usr/share/maven -Dmaven.multiModuleProjectDirectory=/build/reproducible-path/genomicsdb-1.5.5 -Dclassworlds.conf=/etc/maven/m2-debian.conf -Dproperties.file.manual=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.properties org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.5/debian -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo --batch-mode test OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release. [INFO] Scanning for projects... [INFO] [INFO] ---------------------< org.genomicsdb:genomicsdb >---------------------- [INFO] Building org.genomicsdb:genomicsdb 1.5.5 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [WARNING] The artifact com.googlecode.json-simple:json-simple:jar:debian has been relocated to com.github.cliftonlabs:json-simple:jar:debian [INFO] [INFO] --- antrun:3.1.0:run (exec-protoc) @ genomicsdb --- [INFO] Executing tasks [INFO] Executed tasks [INFO] [INFO] --- build-helper:3.3.0:add-source (add-source) @ genomicsdb --- [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/src/main/scala added. [INFO] [INFO] --- resources:3.3.1:resources (default-resources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.5/src/main/resources [INFO] [INFO] --- compiler:3.13.0:compile (default-compile) @ genomicsdb --- [INFO] Recompiling the module because of changed source code. [INFO] Compiling 30 source files with javac [debug target 17] to build/classes [WARNING] system modules path not set in conjunction with -source 17 [INFO] Annotation processing is enabled because one or more processors were found on the class path. A future release of javac may disable annotation processing unless at least one processor is specified by name (-processor), or a search path is specified (--processor-path, --processor-module-path), or annotation processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBVidMapProto.java:[93,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBTimer.java:[37,14] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/ImportConfig.java:[76,36] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[177,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2228,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2269,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[792,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3035,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3987,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBCallsetsMapProto.java:[139,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/exception/GenomicsDBException.java:[28,8] serializable class org.genomicsdb.exception.GenomicsDBException has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,50] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[160,28] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[333,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[333,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[334,9] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[334,30] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[336,9] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[336,41] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[338,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[338,36] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[342,17] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[342,40] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[462,17] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[462,45] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[483,9] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[483,41] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[690,94] found raw type: java.util.concurrent.CompletableFuture missing type arguments for generic class java.util.concurrent.CompletableFuture [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[224,46] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[99,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[109,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[50,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.Pair has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[70,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.VariantCall has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[76,25] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[110,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.Interval has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[112,23] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[483,84] PARSER in org.genomicsdb.model.Coordinates.GenomicsDBColumnOrInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[5485,72] PARSER in org.genomicsdb.model.Coordinates.ContigInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[4407,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[10171,72] PARSER in org.genomicsdb.model.Coordinates.ContigInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7553,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7594,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7635,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[54,27] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[139,58] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[79,39] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[206,31] previous possible 'this' escape happens here via invocation [INFO] [INFO] --- antrun:3.1.0:run (copy-native-libs) @ genomicsdb --- [INFO] Executing tasks [WARNING] [exec] The command attribute is deprecated. [exec] Please use the executable attribute and nested arg elements. [INFO] [exec] cp: cannot stat '/build/reproducible-path/genomicsdb-1.5.5/build/src/main/libtiledbgenomicsdb.dylib': No such file or directory [INFO] [exec] Result: 1 [WARNING] [exec] The command attribute is deprecated. [exec] Please use the executable attribute and nested arg elements. [INFO] [exec] cp: cannot stat '/build/reproducible-path/genomicsdb-1.5.5/build/src/main/libtiledbgenomicsdb.so': No such file or directory [INFO] [exec] Result: 1 [INFO] Executed tasks [INFO] [INFO] --- resources:3.3.1:testResources (default-testResources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.5/src/test/resources [INFO] [INFO] --- antrun:3.1.0:run (unzip-test-artifacts) @ genomicsdb --- [INFO] Executing tasks [INFO] [untar] Expanding: /build/reproducible-path/genomicsdb-1.5.5/build/test/test.tar into /build/reproducible-path/genomicsdb-1.5.5/build/test [INFO] Executed tasks [INFO] [INFO] --- compiler:3.13.0:testCompile (default-testCompile) @ genomicsdb --- [INFO] Recompiling the module because of changed dependency. [INFO] Compiling 12 source files with javac [debug target 17] to build/test-classes [WARNING] system modules path not set in conjunction with -source 17 [INFO] Annotation processing is enabled because one or more processors were found on the class path. A future release of javac may disable annotation processing unless at least one processor is specified by name (-processor), or a search path is specified (--processor-path, --processor-module-path), or annotation processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] No processor claimed any of these annotations: /org.testng.annotations.BeforeClass,/org.testng.annotations.Test,/org.testng.annotations.DataProvider,/org.testng.annotations.BeforeMethod,/org.testng.annotations.AfterMethod [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,38] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[176,13] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[176,39] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[181,17] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[181,44] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[201,18] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[257,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[289,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[322,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[362,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[398,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[443,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[482,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[536,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [INFO] [INFO] --- surefire:2.22.3:test (default-test) @ genomicsdb --- [INFO] [INFO] ------------------------------------------------------- [INFO] T E S T S [INFO] ------------------------------------------------------- [INFO] Running TestSuite 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),0.0032692619999999998,Cpu time(s),0.003283516 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.0013322490000000002,Cpu time(s),0.001441302 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),6.022E-4,Cpu time(s),7.00428E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.63661E-4,Cpu time(s),4.4376400000000003E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.99684E-4,Cpu time(s),4.72084E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),2.61366E-4,Cpu time(s),2.69077E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),2.4558E-4,Cpu time(s),2.20819E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.0622E-4,Cpu time(s),3.74968E-4 [INFO] Tests run: 46, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.065 s - in TestSuite [INFO] [INFO] Results: [INFO] [INFO] Tests run: 46, Failures: 0, Errors: 0, Skipped: 0 [INFO] [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 40.775 s [INFO] Finished at: 2025-10-30T22:44:51-12:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake dh_prep -O--buildsystem=cmake debian/rules override_dh_auto_install-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Installing the Java part. dh_auto_install --buildsystem=maven /usr/lib/jvm/default-java/bin/java -noverify -cp /usr/share/maven/boot/plexus-classworlds-2.x.jar -Dmaven.home=/usr/share/maven -Dmaven.multiModuleProjectDirectory=/build/reproducible-path/genomicsdb-1.5.5 -Dclassworlds.conf=/etc/maven/m2-debian.conf -Dproperties.file.manual=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.properties org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.5/debian -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo --batch-mode -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.5/debian -Ddebian.package=libgenomicsdb-java -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo -Dinstall.to.usj=true org.debian.maven:debian-maven-plugin:2.6:install OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release. [INFO] Scanning for projects... [INFO] [INFO] ---------------------< org.genomicsdb:genomicsdb >---------------------- [INFO] Building org.genomicsdb:genomicsdb 1.5.5 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- debian:2.6:install (default-cli) @ genomicsdb --- [INFO] Cleaning pom file: /build/reproducible-path/genomicsdb-1.5.5/pom.xml.save with options: [INFO] --keep-pom-version --package=libgenomicsdb-java [INFO] --rules=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.rules [INFO] --ignore-rules=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.ignoreRules [INFO] --published-rules=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.publishedRules [INFO] Install jar for genomicsdb into /usr/share/java [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 0.438 s [INFO] Finished at: 2025-10-30T22:44:53-12:00 [INFO] ------------------------------------------------------------------------ mh_resolve_dependencies --non-interactive --offline --build -plibgenomicsdb-java --base-directory=/build/reproducible-path/genomicsdb-1.5.5 --non-explore Analysing pom.xml... mh_unpatchpoms -plibgenomicsdb-java make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_install -O--buildsystem=cmake -Nlibgenomicsdb-java cd obj-x86_64-linux-gnu && make -j40 install DESTDIR=/build/reproducible-path/genomicsdb-1.5.5/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-hts.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/klist.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hfile.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/khash.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/synced_bcf_reader.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kseq.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kbitset.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/knetfile.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kroundup.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcfutils.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_defs.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/tbx.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kfunc.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/cram.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/faidx.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_log.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/sam.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_endian.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kstring.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf_sweep.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/regidx.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/bgzf.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/ksort.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_os.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/khash_str2int.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/thread_pool.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-tiledb.a -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-tiledb.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb_constants.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb_storage.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb_utils.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.a -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.so.1.5.4 -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.so.1 -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.so.1.5.4" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb_exception.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb_status.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb_utils.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/genomicsdb.pc -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_demo -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_demo" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/create_genomicsdb_workspace -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/create_genomicsdb_workspace" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf2genomicsdb_init -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf2genomicsdb_init" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf2genomicsdb -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf2genomicsdb" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/consolidate_genomicsdb_array -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/consolidate_genomicsdb_array" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/gt_mpi_gather -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/gt_mpi_gather" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcfdiff -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcfdiff" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf_histogram -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf_histogram" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_bcf_generator -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_bcf_generator" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_importer -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_importer" to "/usr/lib/x86_64-linux-gnu/genomicsdb" make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' dh_install -O--buildsystem=cmake debian/rules execute_after_dh_install-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Setting the runpath of the jni library to only contain the path to the private libs. chrpath -r "/usr/lib/x86_64-linux-gnu/genomicsdb" /build/reproducible-path/genomicsdb-1.5.5/debian/libgenomicsdb-jni/usr/lib/jni/libgenomicsdbjni.so /build/reproducible-path/genomicsdb-1.5.5/debian/libgenomicsdb-jni/usr/lib/jni/libgenomicsdbjni.so: RUNPATH=/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/debian/libgenomicsdb-jni/usr/lib/jni/libgenomicsdbjni.so: new RUNPATH: /usr/lib/x86_64-linux-gnu/genomicsdb make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_installjavadoc -O--buildsystem=cmake Duplicate specification "A" for option "A" dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake dh_installexamples -O--buildsystem=cmake dh_installman -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_lintian -O--buildsystem=cmake dh_perl -O--buildsystem=cmake dh_link -O--buildsystem=cmake jh_installlibs -O--buildsystem=cmake jh_classpath -O--buildsystem=cmake Duplicate specification "version|V" for option "V" jh_manifest -O--buildsystem=cmake Duplicate specification "V:s" for option "V" jh_exec -O--buildsystem=cmake jh_depends -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake dh_fixperms -O--buildsystem=cmake dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dwz: debian/libgenomicsdb1/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-hts.so: DWARF compression not beneficial - old size 855098 new size 870650 dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-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 log: 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: 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_1.5.5-2_all.deb'. dpkg-deb: building package 'libgenomicsdb-jni-dbgsym' in '../libgenomicsdb-jni-dbgsym_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb-jni' in '../libgenomicsdb-jni_1.5.5-2_amd64.deb'. dpkg-deb: building package 'genomicsdb-tools' in '../genomicsdb-tools_1.5.5-2_amd64.deb'. dpkg-deb: building package 'genomicsdb-tools-dbgsym' in '../genomicsdb-tools-dbgsym_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb1' in '../libgenomicsdb1_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb1-dbgsym' in '../libgenomicsdb1-dbgsym_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb-dev' in '../libgenomicsdb-dev_1.5.5-2_amd64.deb'. dpkg-genbuildinfo --build=binary -O../genomicsdb_1.5.5-2_amd64.buildinfo dpkg-genchanges --build=binary -O../genomicsdb_1.5.5-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration 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/4101407 and its subdirectories I: Current time: Thu Oct 30 22:46:12 -12 2025 I: pbuilder-time-stamp: 1761907572 Fri Oct 31 10:46:12 UTC 2025 I: Signing ./b1/genomicsdb_1.5.5-2_amd64.buildinfo as genomicsdb_1.5.5-2_amd64.buildinfo.asc Fri Oct 31 10:46:12 UTC 2025 I: Signed ./b1/genomicsdb_1.5.5-2_amd64.buildinfo as ./b1/genomicsdb_1.5.5-2_amd64.buildinfo.asc Fri Oct 31 10:46:12 UTC 2025 - build #1 for genomicsdb/forky/amd64 on ionos1-amd64 done. Starting cleanup. All cleanup done. Fri Oct 31 10:46:12 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-PUdsTr5E, removing. /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz: total 20 drwxrwxr-x 2 jenkins jenkins 4096 Oct 31 10:46 b1 drwxrwxr-x 2 jenkins jenkins 4096 Oct 31 10:39 b2 -rw-rw-r-- 1 jenkins jenkins 3397 Oct 2 15:19 genomicsdb_1.5.5-2.dsc -rw------- 1 jenkins jenkins 4512 Oct 31 10:39 rbuildlog.CmeadnY /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b1: total 150880 -rw-r--r-- 1 jenkins jenkins 1380590 Oct 31 10:46 build.log -rw-r--r-- 1 jenkins jenkins 107324284 Oct 31 10:46 genomicsdb-tools-dbgsym_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 1592140 Oct 31 10:46 genomicsdb-tools_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 29348 Oct 31 10:46 genomicsdb_1.5.5-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 3397 Oct 31 10:46 genomicsdb_1.5.5-2.dsc -rw-r--r-- 1 jenkins jenkins 21973 Oct 31 10:46 genomicsdb_1.5.5-2_amd64.buildinfo -rw-rw-r-- 1 jenkins jenkins 22855 Oct 31 10:46 genomicsdb_1.5.5-2_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 3675 Oct 31 10:46 genomicsdb_1.5.5-2_amd64.changes -rw-r--r-- 1 jenkins jenkins 1265 Oct 31 10:46 genomicsdb_1.5.5-2_source.changes -rw-r--r-- 1 jenkins jenkins 2034984 Oct 31 10:46 libgenomicsdb-dev_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 409744 Oct 31 10:46 libgenomicsdb-java_1.5.5-2_all.deb -rw-r--r-- 1 jenkins jenkins 2049852 Oct 31 10:46 libgenomicsdb-jni-dbgsym_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 86564 Oct 31 10:46 libgenomicsdb-jni_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 37866184 Oct 31 10:46 libgenomicsdb1-dbgsym_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 1638932 Oct 31 10:46 libgenomicsdb1_1.5.5-2_amd64.deb /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b2: total 0 Fri Oct 31 10:46:14 UTC 2025 I: Deleting $TMPDIR on ionos1-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Oct 30 22:39:42 -12 2025 I: pbuilder-time-stamp: 1761907182 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [genomicsdb_1.5.5-2.dsc] I: copying [./genomicsdb_1.5.5.orig-genomicsdb-htslib.tar.gz] I: copying [./genomicsdb_1.5.5.orig-genomicsdb-tiledb.tar.gz] I: copying [./genomicsdb_1.5.5.orig.tar.gz] I: copying [./genomicsdb_1.5.5-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./genomicsdb_1.5.5-2.dsc: no acceptable signature found dpkg-source: info: extracting genomicsdb in genomicsdb-1.5.5 dpkg-source: info: unpacking genomicsdb_1.5.5.orig.tar.gz dpkg-source: info: unpacking genomicsdb_1.5.5.orig-genomicsdb-htslib.tar.gz dpkg-source: info: unpacking genomicsdb_1.5.5.orig-genomicsdb-tiledb.tar.gz dpkg-source: info: unpacking genomicsdb_1.5.5-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no_download_of_dependencies.patch dpkg-source: info: applying using_htslib_from_component.patch dpkg-source: info: applying using_timedb_from_component.patch dpkg-source: info: applying strip_tiledb_CMakeLists.patch dpkg-source: info: applying ignoring_sdk_to_download.patch dpkg-source: info: applying use_shared_protobuf_lib.patch dpkg-source: info: applying missing_links_in_libs.patch dpkg-source: info: applying pom.patch dpkg-source: info: applying no_spark_in_Java_build.patch dpkg-source: info: applying tests_in_all_target.patch dpkg-source: info: applying run_tests_in_not_yet_installed_dir.patch dpkg-source: info: applying build_jni.patch dpkg-source: info: applying library_names_and_install_paths.patch dpkg-source: info: applying htslib_define_PATH_MAX.patch dpkg-source: info: applying htslib_testShebang.patch dpkg-source: info: applying htslib_fix_float_precision dpkg-source: info: applying handling_rpaths.patch dpkg-source: info: applying disabling_mpi_for_tests.patch dpkg-source: info: applying JsonFormat_from_libprotobuf-java.patch dpkg-source: info: applying gcc-13.patch dpkg-source: info: applying catch2_3.patch dpkg-source: info: applying variant_array_schema_hidden_if_no_DEBUG.patch dpkg-source: info: applying rapidjson_methods.patch dpkg-source: info: applying query_config_serialization.patch dpkg-source: info: applying fmt10.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/4101407/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=40 ' DISTRIBUTION='forky' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='d4deea2ec77c4b889b846e78cfcef225' 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='4101407' PS1='# ' PS2='> ' 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.WjSuggWz/pbuilderrc_pay4 --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b1 --logfile b1/build.log genomicsdb_1.5.5-2.dsc' SUDO_GID='110' SUDO_HOME='/var/lib/jenkins' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos1-amd64 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/4101407/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cmake, default-jdk, javahelper, libbz2-dev, libcatch2-dev, libcurlpp-dev, libfmt-dev, libmuparserx-dev, libprotobuf-dev, libspdlog-dev, libssl-dev, liblzma-dev, maven-debian-helper, mpi-default-dev, protobuf-compiler, rapidjson-dev, testng, uuid-dev, libbuild-helper-maven-plugin-java, libcommons-io-java, libcommons-lang3-java, libgetopt-java, libguava-java, libhtsjdk-java, libjson-simple-java, liblog4j2-java, libmaven-antrun-plugin-java, libprotobuf-java, libsurefire-java, chrpath dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19869 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on default-jdk; however: Package default-jdk is not installed. pbuilder-satisfydepends-dummy depends on javahelper; however: Package javahelper is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on libcatch2-dev; however: Package libcatch2-dev is not installed. pbuilder-satisfydepends-dummy depends on libcurlpp-dev; however: Package libcurlpp-dev is not installed. pbuilder-satisfydepends-dummy depends on libfmt-dev; however: Package libfmt-dev is not installed. pbuilder-satisfydepends-dummy depends on libmuparserx-dev; however: Package libmuparserx-dev is not installed. pbuilder-satisfydepends-dummy depends on libprotobuf-dev; however: Package libprotobuf-dev is not installed. pbuilder-satisfydepends-dummy depends on libspdlog-dev; however: Package libspdlog-dev is not installed. pbuilder-satisfydepends-dummy depends on libssl-dev; however: Package libssl-dev is not installed. pbuilder-satisfydepends-dummy depends on liblzma-dev; however: Package liblzma-dev is not installed. pbuilder-satisfydepends-dummy depends on maven-debian-helper; however: Package maven-debian-helper is not installed. pbuilder-satisfydepends-dummy depends on mpi-default-dev; however: Package mpi-default-dev is not installed. pbuilder-satisfydepends-dummy depends on protobuf-compiler; however: Package protobuf-compiler is not installed. pbuilder-satisfydepends-dummy depends on rapidjson-dev; however: Package rapidjson-dev is not installed. pbuilder-satisfydepends-dummy depends on testng; however: Package testng is not installed. pbuilder-satisfydepends-dummy depends on uuid-dev; however: Package uuid-dev is not installed. pbuilder-satisfydepends-dummy depends on libbuild-helper-maven-plugin-java; however: Package libbuild-helper-maven-plugin-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-io-java; however: Package libcommons-io-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-lang3-java; however: Package libcommons-lang3-java is not installed. pbuilder-satisfydepends-dummy depends on libgetopt-java; however: Package libgetopt-java is not installed. pbuilder-satisfydepends-dummy depends on libguava-java; however: Package libguava-java is not installed. pbuilder-satisfydepends-dummy depends on libhtsjdk-java; however: Package libhtsjdk-java is not installed. pbuilder-satisfydepends-dummy depends on libjson-simple-java; however: Package libjson-simple-java is not installed. pbuilder-satisfydepends-dummy depends on liblog4j2-java; however: Package liblog4j2-java is not installed. pbuilder-satisfydepends-dummy depends on libmaven-antrun-plugin-java; however: Package libmaven-antrun-plugin-java is not installed. pbuilder-satisfydepends-dummy depends on libprotobuf-java; however: Package libprotobuf-java is not installed. pbuilder-satisfydepends-dummy depends on libsurefire-java; however: Package libsurefire-java is not installed. pbuilder-satisfydepends-dummy depends on chrpath; however: Package chrpath is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: adwaita-icon-theme{a} ant{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} binfmt-support{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} chrpath{a} cmake{a} cmake-data{a} comerr-dev{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} fastjar{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} gfortran-15{a} gfortran-15-x86-64-linux-gnu{a} gpg{a} gpg-agent{a} gpgconf{a} groff-base{a} gtk-update-icon-cache{a} hicolor-icon-theme{a} ibverbs-providers{a} intltool-debian{a} jarwrapper{a} java-common{a} javahelper{a} junit4{a} junit5{a} krb5-multidev{a} libamd-comgr2{a} libamdhip64-5{a} libaopalliance-java{a} libapache-pom-java{a} libapiguardian-java{a} libapparmor1{a} libarchive-zip-perl{a} libarchive13t64{a} libasm-java{a} libasound2-data{a} libasound2t64{a} libassuan9{a} libatinject-jsr330-api-java{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbrotli-dev{a} libbrotli1{a} libbsh-java{a} libbuild-helper-maven-plugin-java{a} libbz2-dev{a} libcairo-gobject2{a} libcairo2{a} libcatch2-dev{a} libcbor0.10{a} libcdi-api-java{a} libclass-method-modifiers-perl{a} libclass-xsaccessor-perl{a} libclone-perl{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcommons-beanutils-java{a} libcommons-cli-java{a} libcommons-codec-java{a} libcommons-collections3-java{a} libcommons-collections4-java{a} libcommons-compress-java{a} libcommons-digester-java{a} libcommons-io-java{a} libcommons-jexl2-java{a} libcommons-lang-java{a} libcommons-lang3-java{a} libcommons-logging-java{a} libcommons-parent-java{a} libcommons-text-java{a} libcommons-validator-java{a} libcups2t64{a} libcurl4-openssl-dev{a} libcurl4t64{a} libcurlpp-dev{a} libcurlpp0t64{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate0{a} libdevel-callchecker-perl{a} libdom4j-java{a} libdoxia-core-java{a} libdoxia-java{a} libdoxia-sitetools-java{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm2{a} libdynaloader-functions-perl{a} libedit2{a} libel-api-java{a} libelf1t64{a} libencode-locale-perl{a} libepoxy0{a} liberror-prone-java{a} libevent-2.1-7t64{a} libevent-core-2.1-7t64{a} libevent-dev{a} libevent-extra-2.1-7t64{a} libevent-openssl-2.1-7t64{a} libevent-pthreads-2.1-7t64{a} libexpat1{a} libezmorph-java{a} libfabric1{a} libffi8{a} libfido2-1{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libfmt-dev{a} libfmt10{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgbm1{a} libgcrypt20{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgeronimo-annotation-1.3-spec-java{a} libgeronimo-interceptor-3.0-spec-java{a} libgetopt-java{a} libgfortran-15-dev{a} libgfortran5{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglib2.0-0t64{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgoogle-gson-java{a} libgpg-error0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgtk-3-0t64{a} libgtk-3-common{a} libguava-java{a} libguice-java{a} libhamcrest-java{a} libharfbuzz0b{a} libhsa-runtime64-1{a} libhsakmt1{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhtsjdk-java{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libhttpclient-java{a} libhttpcore-java{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc15{a} libibmad5{a} libibumad3{a} libibverbs-dev{a} libibverbs1{a} libidn2-0{a} libidn2-dev{a} libimport-into-perl{a} libio-html-perl{a} libio-socket-ssl-perl{a} libio-string-perl{a} libjansi-java{a} libjaxen-java{a} libjbig0{a} libjcommander-java{a} libjetty9-java{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjson-java{a} libjson-simple-java{a} libjsoncpp26{a} libjsoup-java{a} libjsp-api-java{a} libjsr305-java{a} libjtidy-java{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libksba8{a} liblcms2-2{a} libldap-dev{a} libldap2{a} liblerc4{a} liblightcouch-java{a} libllvm17t64{a} libllvm19{a} liblog4j2-java{a} libltdl-dev{a} libltdl7{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmaven-antrun-plugin-java{a} libmaven-archiver-java{a} libmaven-clean-plugin-java{a} libmaven-common-artifact-filters-java{a} libmaven-compiler-plugin-java{a} libmaven-file-management-java{a} libmaven-filtering-java{a} libmaven-jar-plugin-java{a} libmaven-parent-java{a} libmaven-plugin-tools-java{a} libmaven-reporting-api-java{a} libmaven-reporting-exec-java{a} libmaven-reporting-impl-java{a} libmaven-resolver-java{a} libmaven-resources-plugin-java{a} libmaven-shared-incremental-java{a} libmaven-shared-io-java{a} libmaven-shared-utils-java{a} libmaven-site-plugin-java{a} libmaven3-core-java{a} libmbedcrypto16{a} libmbedtls21{a} libmbedx509-7{a} libmodule-runtime-perl{a} libmongodb-java{a} libmoo-perl{a} libmunge2{a} libmuparserx-dev{a} libmuparserx4.0.12{a} libncbi-ngs3{a} libncbi-vdb3{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngs-java{a} libngs-jni{a} libngtcp2-16{a} libngtcp2-crypto-ossl-dev{a} libngtcp2-crypto-ossl0{a} libngtcp2-dev{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnpth0t64{a} libnspr4{a} libnss3{a} libnuma-dev{a} libnuma1{a} libopenmpi-dev{a} libopenmpi40{a} libopentest4j-java{a} libopentest4j-reporting-java{a} liboro-java{a} libp11-kit-dev{a} libp11-kit0{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libparams-classify-perl{a} libpciaccess0{a} libpcsclite1{a} libpicocli-java{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libplexus-ant-factory-java{a} libplexus-archiver-java{a} libplexus-bsh-factory-java{a} libplexus-build-api-java{a} libplexus-cipher-java{a} libplexus-classworlds-java{a} libplexus-compiler-java{a} libplexus-component-annotations-java{a} libplexus-container-default-java{a} libplexus-container-default1.5-java{a} libplexus-i18n-java{a} libplexus-interpolation-java{a} libplexus-io-java{a} libplexus-languages-java{a} libplexus-sec-dispatcher-java{a} libplexus-utils2-java{a} libplexus-velocity-java{a} libplexus-xml-java{a} libpmix2t64{a} libpng16-16t64{a} libproc2-0{a} libprotobuf-dev{a} libprotobuf-java{a} libprotobuf-lite32t64{a} libprotobuf32t64{a} libprotoc32t64{a} libpsl-dev{a} libpsl5t64{a} libpsm2-2{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libqdox2-java{a} librdmacm1t64{a} libreadline8t64{a} librhash1{a} librhino-java{a} librole-tiny-perl{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libservlet-api-java{a} libsharpyuv0{a} libsisu-inject-java{a} libsisu-plexus-java{a} libslf4j-java{a} libsnappy-java{a} libsnappy-jni{a} libsnappy1v5{a} libspdlog-dev{a} libspdlog1.15{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsub-quote-perl{a} libsurefire-java{a} libsystemd-shared{a} libtasn1-6{a} libtasn1-6-dev{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} libucx0{a} libunbound8{a} libunistring5{a} libunivocity-parsers-java{a} liburi-perl{a} libuv1t64{a} libvelocity-tools-java{a} libvulkan1{a} libwagon-file-java{a} libwagon-http-java{a} libwagon-provider-api-java{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwebp7{a} libwebsocket-api-java{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxbean-reflect-java{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxerces2-java{a} libxext6{a} libxfixes3{a} libxi6{a} libxinerama1{a} libxkbcommon0{a} libxml-commons-external-java{a} libxml-commons-resolver1.1-java{a} libxml2-16{a} libxml2-utils{a} libxnvctrl0{a} libxom-java{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxtst6{a} libxxf86vm1{a} libxz-java{a} libz3-4{a} libze1{a} libzstd-dev{a} m4{a} man-db{a} maven{a} maven-debian-helper{a} maven-repo-helper{a} media-types{a} mesa-libgallium{a} mpi-default-dev{a} ncbi-vdb-data{a} netbase{a} nettle-dev{a} ocl-icd-libopencl1{a} openjdk-21-jdk{a} openjdk-21-jdk-headless{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} openssl{a} patchutils{a} perl-openssl-defaults{a} pinentry-curses{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} protobuf-compiler{a} python3{a} python3-minimal{a} python3.13{a} python3.13-minimal{a} rapidjson-dev{a} readline-common{a} rsopv{a} sensible-utils{a} sgml-base{a} shared-mime-info{a} systemd{a} systemd-sysv{a} testng{a} tzdata{a} unzip{a} uuid-dev{a} velocity{a} wdiff{a} x11-common{a} xkb-data{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf ant-optional at-spi2-core bzip2-doc chrony curl debian-keyring debian-tag2upload-keyring dput dput-ng dupload equivs fonts-dejavu-extra git-debpush gnupg javascript-common krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libdata-dump-perl libdistro-info-perl libgdk-pixbuf2.0-bin libgitlab-api-v4-perl libglib2.0-data libgpg-error-l10n libgtk-3-bin libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libio-compress-brotli-perl libjson-perl libkmod2 libldap-common libmail-sendmail-perl libmailtools-perl libmetacpan-client-perl libnamespace-clean-perl libnss-systemd librsvg2-common libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libtasn1-doc libxstring-perl libxt-dev libyaml-snake-java licensecheck lintian linux-sysctl-defaults login lynx lzip mesa-vulkan-drivers ntpsec openntpd pristine-tar psmisc publicsuffix python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg strace systemd-cryptsetup systemd-timesyncd wget xauth xdg-user-dirs 0 packages upgraded, 498 newly installed, 0 to remove and 0 not upgraded. Need to get 390 MB of archives. After unpacking 1272 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main amd64 libsystemd-shared amd64 258.1-2 [2253 kB] Get: 2 http://deb.debian.org/debian forky/main amd64 systemd amd64 258.1-2 [3229 kB] Get: 3 http://deb.debian.org/debian forky/main amd64 systemd-sysv amd64 258.1-2 [63.8 kB] Get: 4 http://deb.debian.org/debian forky/main amd64 libdbus-1-3 amd64 1.16.2-2 [178 kB] Get: 5 http://deb.debian.org/debian forky/main amd64 dbus-bin amd64 1.16.2-2 [80.0 kB] Get: 6 http://deb.debian.org/debian forky/main amd64 dbus-session-bus-common all 1.16.2-2 [52.3 kB] Get: 7 http://deb.debian.org/debian forky/main amd64 libapparmor1 amd64 4.1.0-1 [43.7 kB] Get: 8 http://deb.debian.org/debian forky/main amd64 libexpat1 amd64 2.7.3-1 [112 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 dbus-daemon amd64 1.16.2-2 [159 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 dbus-system-bus-common all 1.16.2-2 [53.5 kB] Get: 11 http://deb.debian.org/debian forky/main amd64 dbus amd64 1.16.2-2 [71.6 kB] Get: 12 http://deb.debian.org/debian forky/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 13 http://deb.debian.org/debian forky/main amd64 binfmt-support amd64 2.2.2-7 [64.3 kB] Get: 14 http://deb.debian.org/debian forky/main amd64 libpython3.13-minimal amd64 3.13.9-1 [865 kB] Get: 15 http://deb.debian.org/debian forky/main amd64 python3.13-minimal amd64 3.13.9-1 [2257 kB] Get: 16 http://deb.debian.org/debian forky/main amd64 python3-minimal amd64 3.13.7-1 [27.2 kB] Get: 17 http://deb.debian.org/debian forky/main amd64 media-types all 14.0.0 [30.8 kB] Get: 18 http://deb.debian.org/debian forky/main amd64 netbase all 6.5 [12.4 kB] Get: 19 http://deb.debian.org/debian forky/main amd64 tzdata all 2025b-5 [260 kB] Get: 20 http://deb.debian.org/debian forky/main amd64 libffi8 amd64 3.5.2-2 [25.5 kB] Get: 21 http://deb.debian.org/debian forky/main amd64 readline-common all 8.3-3 [74.8 kB] Get: 22 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.3-3 [191 kB] Get: 23 http://deb.debian.org/debian forky/main amd64 libpython3.13-stdlib amd64 3.13.9-1 [1965 kB] Get: 24 http://deb.debian.org/debian forky/main amd64 python3.13 amd64 3.13.9-1 [764 kB] Get: 25 http://deb.debian.org/debian forky/main amd64 libpython3-stdlib amd64 3.13.7-1 [10.2 kB] Get: 26 http://deb.debian.org/debian forky/main amd64 python3 amd64 3.13.7-1 [28.3 kB] Get: 27 http://deb.debian.org/debian forky/main amd64 libproc2-0 amd64 2:4.0.4-9 [65.6 kB] Get: 28 http://deb.debian.org/debian forky/main amd64 procps amd64 2:4.0.4-9 [882 kB] Get: 29 http://deb.debian.org/debian forky/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 30 http://deb.debian.org/debian forky/main amd64 openssl amd64 3.5.4-1 [1496 kB] Get: 31 http://deb.debian.org/debian forky/main amd64 ca-certificates all 20250419 [162 kB] Get: 32 http://deb.debian.org/debian forky/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 33 http://deb.debian.org/debian forky/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 34 http://deb.debian.org/debian forky/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 35 http://deb.debian.org/debian forky/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 36 http://deb.debian.org/debian forky/main amd64 libuchardet0 amd64 0.0.8-2 [68.5 kB] Get: 37 http://deb.debian.org/debian forky/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 38 http://deb.debian.org/debian forky/main amd64 libpam-systemd amd64 258.1-2 [312 kB] Get: 39 http://deb.debian.org/debian forky/main amd64 bsdextrautils amd64 2.41.2-4 [98.5 kB] Get: 40 http://deb.debian.org/debian forky/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 41 http://deb.debian.org/debian forky/main amd64 libedit2 amd64 3.1-20250104-1 [93.8 kB] Get: 42 http://deb.debian.org/debian forky/main amd64 libcbor0.10 amd64 0.10.2-2 [28.3 kB] Get: 43 http://deb.debian.org/debian forky/main amd64 libfido2-1 amd64 1.16.0-2 [78.8 kB] Get: 44 http://deb.debian.org/debian forky/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 45 http://deb.debian.org/debian forky/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get: 46 http://deb.debian.org/debian forky/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 47 http://deb.debian.org/debian forky/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 48 http://deb.debian.org/debian forky/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 49 http://deb.debian.org/debian forky/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 50 http://deb.debian.org/debian forky/main amd64 openssh-client amd64 1:10.2p1-2 [1031 kB] Get: 51 http://deb.debian.org/debian forky/main amd64 libgdk-pixbuf2.0-common all 2.44.4+dfsg-1 [313 kB] Get: 52 http://deb.debian.org/debian forky/main amd64 libglib2.0-0t64 amd64 2.86.1-1 [1546 kB] Get: 53 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.6+dfsg-0.1 [651 kB] Get: 54 http://deb.debian.org/debian forky/main amd64 shared-mime-info amd64 2.4-5+b3 [758 kB] Get: 55 http://deb.debian.org/debian forky/main amd64 libjpeg62-turbo amd64 1:2.1.5-4 [168 kB] Get: 56 http://deb.debian.org/debian forky/main amd64 libpng16-16t64 amd64 1.6.50-1 [282 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 libdeflate0 amd64 1.23-2 [47.3 kB] Get: 58 http://deb.debian.org/debian forky/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get: 59 http://deb.debian.org/debian forky/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get: 60 http://deb.debian.org/debian forky/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [116 kB] Get: 61 http://deb.debian.org/debian forky/main amd64 libwebp7 amd64 1.5.0-0.1 [318 kB] Get: 62 http://deb.debian.org/debian forky/main amd64 libtiff6 amd64 4.7.1-1 [361 kB] Get: 63 http://deb.debian.org/debian forky/main amd64 libgdk-pixbuf-2.0-0 amd64 2.44.4+dfsg-1 [144 kB] Get: 64 http://deb.debian.org/debian forky/main amd64 gtk-update-icon-cache amd64 4.20.2+ds-2 [53.6 kB] Get: 65 http://deb.debian.org/debian forky/main amd64 hicolor-icon-theme all 0.18-2 [11.8 kB] Get: 66 http://deb.debian.org/debian forky/main amd64 adwaita-icon-theme all 49.0-1 [507 kB] Get: 67 http://deb.debian.org/debian forky/main amd64 ca-certificates-java all 20240118 [11.6 kB] Get: 68 http://deb.debian.org/debian forky/main amd64 java-common all 0.76 [6776 B] Get: 69 http://deb.debian.org/debian forky/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get: 70 http://deb.debian.org/debian forky/main amd64 libnspr4 amd64 2:4.37-1 [111 kB] Get: 71 http://deb.debian.org/debian forky/main amd64 libnss3 amd64 2:3.117-1 [1429 kB] Get: 72 http://deb.debian.org/debian forky/main amd64 libpcsclite1 amd64 2.4.0-1 [55.7 kB] Get: 73 http://deb.debian.org/debian forky/main amd64 openjdk-21-jre-headless amd64 21.0.9+10-1 [41.9 MB] Get: 74 http://deb.debian.org/debian forky/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B] Get: 75 http://deb.debian.org/debian forky/main amd64 ant all 1.10.15-1 [2163 kB] Get: 76 http://deb.debian.org/debian forky/main amd64 at-spi2-common all 2.58.1-1 [173 kB] Get: 77 http://deb.debian.org/debian forky/main amd64 m4 amd64 1.4.20-2 [325 kB] Get: 78 http://deb.debian.org/debian forky/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 79 http://deb.debian.org/debian forky/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 80 http://deb.debian.org/debian forky/main amd64 automake all 1:1.18.1-2 [877 kB] Get: 81 http://deb.debian.org/debian forky/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 82 http://deb.debian.org/debian forky/main amd64 chrpath amd64 0.18-1 [13.5 kB] Get: 83 http://deb.debian.org/debian forky/main amd64 cmake-data all 4.1.1+really3.31.6-2 [2268 kB] Get: 84 http://deb.debian.org/debian forky/main amd64 libarchive13t64 amd64 3.7.4-4+b1 [349 kB] Get: 85 http://deb.debian.org/debian forky/main amd64 libnghttp3-9 amd64 1.12.0-1 [68.4 kB] Get: 86 http://deb.debian.org/debian forky/main amd64 libngtcp2-16 amd64 1.16.0-1 [136 kB] Get: 87 http://deb.debian.org/debian forky/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 88 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 89 http://deb.debian.org/debian forky/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get: 90 http://deb.debian.org/debian forky/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-10 [19.8 kB] Get: 91 http://deb.debian.org/debian forky/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-10 [57.8 kB] Get: 92 http://deb.debian.org/debian forky/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 93 http://deb.debian.org/debian forky/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get: 94 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-ossl0 amd64 1.16.0-1 [27.5 kB] Get: 95 http://deb.debian.org/debian forky/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 96 http://deb.debian.org/debian forky/main amd64 libp11-kit0 amd64 0.25.9-2 [443 kB] Get: 97 http://deb.debian.org/debian forky/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 98 http://deb.debian.org/debian forky/main amd64 libgnutls30t64 amd64 3.8.10-3 [1493 kB] Get: 99 http://deb.debian.org/debian forky/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get: 100 http://deb.debian.org/debian forky/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 101 http://deb.debian.org/debian forky/main amd64 libcurl4t64 amd64 8.17.0~rc2-1 [408 kB] Get: 102 http://deb.debian.org/debian forky/main amd64 libjsoncpp26 amd64 1.9.6-4 [89.4 kB] Get: 103 http://deb.debian.org/debian forky/main amd64 librhash1 amd64 1.4.6-1 [137 kB] Get: 104 http://deb.debian.org/debian forky/main amd64 libuv1t64 amd64 1.51.0-2 [155 kB] Get: 105 http://deb.debian.org/debian forky/main amd64 cmake amd64 4.1.1+really3.31.6-2 [12.2 MB] Get: 106 http://deb.debian.org/debian forky/main amd64 comerr-dev amd64 2.1-1.47.2-3+b3 [56.7 kB] Get: 107 http://deb.debian.org/debian forky/main amd64 dbus-user-session amd64 1.16.2-2 [52.1 kB] Get: 108 http://deb.debian.org/debian forky/main amd64 libdconf1 amd64 0.49.0-1 [43.6 kB] Get: 109 http://deb.debian.org/debian forky/main amd64 dconf-service amd64 0.49.0-1 [33.7 kB] Get: 110 http://deb.debian.org/debian forky/main amd64 dconf-gsettings-backend amd64 0.49.0-1 [29.8 kB] Get: 111 http://deb.debian.org/debian forky/main amd64 dctrl-tools amd64 2.24-3+b1 [104 kB] Get: 112 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.28 [92.4 kB] Get: 113 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-7 [540 kB] Get: 114 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 21 [12.2 kB] Get: 115 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 116 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 117 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 118 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.193-3 [192 kB] Get: 119 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.16-2 [108 kB] Get: 120 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 121 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 122 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 123 http://deb.debian.org/debian forky/main amd64 debhelper all 13.28 [941 kB] Get: 124 http://deb.debian.org/debian forky/main amd64 libatk1.0-0t64 amd64 2.58.1-1 [53.0 kB] Get: 125 http://deb.debian.org/debian forky/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 126 http://deb.debian.org/debian forky/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get: 127 http://deb.debian.org/debian forky/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 128 http://deb.debian.org/debian forky/main amd64 libx11-data all 2:1.8.12-1 [343 kB] Get: 129 http://deb.debian.org/debian forky/main amd64 libx11-6 amd64 2:1.8.12-1 [815 kB] Get: 130 http://deb.debian.org/debian forky/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB] Get: 131 http://deb.debian.org/debian forky/main amd64 libxi6 amd64 2:1.8.2-1 [78.9 kB] Get: 132 http://deb.debian.org/debian forky/main amd64 libatspi2.0-0t64 amd64 2.58.1-1 [81.8 kB] Get: 133 http://deb.debian.org/debian forky/main amd64 libatk-bridge2.0-0t64 amd64 2.58.1-1 [69.7 kB] Get: 134 http://deb.debian.org/debian forky/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 135 http://deb.debian.org/debian forky/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 136 http://deb.debian.org/debian forky/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 137 http://deb.debian.org/debian forky/main amd64 fontconfig-config amd64 2.15.0-2.4 [318 kB] Get: 138 http://deb.debian.org/debian forky/main amd64 libfontconfig1 amd64 2.15.0-2.4 [401 kB] Get: 139 http://deb.debian.org/debian forky/main amd64 libpixman-1-0 amd64 0.46.4-1 [259 kB] Get: 140 http://deb.debian.org/debian forky/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get: 141 http://deb.debian.org/debian forky/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get: 142 http://deb.debian.org/debian forky/main amd64 libxrender1 amd64 1:0.9.12-1 [27.9 kB] Get: 143 http://deb.debian.org/debian forky/main amd64 libcairo2 amd64 1.18.4-1+b1 [538 kB] Get: 144 http://deb.debian.org/debian forky/main amd64 libcairo-gobject2 amd64 1.18.4-1+b1 [130 kB] Get: 145 http://deb.debian.org/debian forky/main amd64 libcloudproviders0 amd64 0.3.6-3 [32.9 kB] Get: 146 http://deb.debian.org/debian forky/main amd64 libcolord2 amd64 1.4.8-2 [140 kB] Get: 147 http://deb.debian.org/debian forky/main amd64 libavahi-common-data amd64 0.8-17 [112 kB] Get: 148 http://deb.debian.org/debian forky/main amd64 libavahi-common3 amd64 0.8-17 [47.3 kB] Get: 149 http://deb.debian.org/debian forky/main amd64 libavahi-client3 amd64 0.8-17 [52.1 kB] Get: 150 http://deb.debian.org/debian forky/main amd64 libcups2t64 amd64 2.4.14-1 [255 kB] Get: 151 http://deb.debian.org/debian forky/main amd64 libepoxy0 amd64 1.5.10-2 [193 kB] Get: 152 http://deb.debian.org/debian forky/main amd64 libfribidi0 amd64 1.0.16-3 [26.6 kB] Get: 153 http://deb.debian.org/debian forky/main amd64 libgraphite2-3 amd64 1.3.14-11 [76.7 kB] Get: 154 http://deb.debian.org/debian forky/main amd64 libharfbuzz0b amd64 12.1.0-1 [530 kB] Get: 155 http://deb.debian.org/debian forky/main amd64 fontconfig amd64 2.15.0-2.4 [464 kB] Get: 156 http://deb.debian.org/debian forky/main amd64 libthai-data all 0.1.29-2 [168 kB] Get: 157 http://deb.debian.org/debian forky/main amd64 libdatrie1 amd64 0.2.13-4 [38.0 kB] Get: 158 http://deb.debian.org/debian forky/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get: 159 http://deb.debian.org/debian forky/main amd64 libpango-1.0-0 amd64 1.56.3-2 [239 kB] Get: 160 http://deb.debian.org/debian forky/main amd64 libpangoft2-1.0-0 amd64 1.56.3-2 [62.0 kB] Get: 161 http://deb.debian.org/debian forky/main amd64 libpangocairo-1.0-0 amd64 1.56.3-2 [38.1 kB] Get: 162 http://deb.debian.org/debian forky/main amd64 libwayland-client0 amd64 1.24.0-2+b1 [28.5 kB] Get: 163 http://deb.debian.org/debian forky/main amd64 libwayland-cursor0 amd64 1.24.0-2+b1 [12.3 kB] Get: 164 http://deb.debian.org/debian forky/main amd64 libwayland-egl1 amd64 1.24.0-2+b1 [6224 B] Get: 165 http://deb.debian.org/debian forky/main amd64 libxcomposite1 amd64 1:0.4.6-1 [16.3 kB] Get: 166 http://deb.debian.org/debian forky/main amd64 libxfixes3 amd64 1:6.0.0-2+b4 [20.2 kB] Get: 167 http://deb.debian.org/debian forky/main amd64 libxcursor1 amd64 1:1.2.3-1 [39.7 kB] Get: 168 http://deb.debian.org/debian forky/main amd64 libxdamage1 amd64 1:1.1.6-1+b2 [15.5 kB] Get: 169 http://deb.debian.org/debian forky/main amd64 libxinerama1 amd64 2:1.1.4-3+b4 [16.0 kB] Get: 170 http://deb.debian.org/debian forky/main amd64 xkb-data all 2.42-1 [790 kB] Get: 171 http://deb.debian.org/debian forky/main amd64 libxkbcommon0 amd64 1.7.0-2.1 [113 kB] Get: 172 http://deb.debian.org/debian forky/main amd64 libxrandr2 amd64 2:1.5.4-1+b3 [36.3 kB] Get: 173 http://deb.debian.org/debian forky/main amd64 libgtk-3-common all 3.24.51-1 [4922 kB] Get: 174 http://deb.debian.org/debian forky/main amd64 libgtk-3-0t64 amd64 3.24.51-1 [2932 kB] Get: 175 http://deb.debian.org/debian forky/main amd64 libglvnd0 amd64 1.7.0-1+b2 [52.0 kB] Get: 176 http://deb.debian.org/debian forky/main amd64 libdrm-common all 2.4.127-1 [9060 B] Get: 177 http://deb.debian.org/debian forky/main amd64 libdrm2 amd64 2.4.127-1 [39.8 kB] Get: 178 http://deb.debian.org/debian forky/main amd64 libx11-xcb1 amd64 2:1.8.12-1 [247 kB] Get: 179 http://deb.debian.org/debian forky/main amd64 libxcb-dri3-0 amd64 1.17.0-2+b1 [107 kB] Get: 180 http://deb.debian.org/debian forky/main amd64 libxcb-glx0 amd64 1.17.0-2+b1 [122 kB] Get: 181 http://deb.debian.org/debian forky/main amd64 libxcb-present0 amd64 1.17.0-2+b1 [106 kB] Get: 182 http://deb.debian.org/debian forky/main amd64 libxcb-xfixes0 amd64 1.17.0-2+b1 [109 kB] Get: 183 http://deb.debian.org/debian forky/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b4 [19.3 kB] Get: 184 http://deb.debian.org/debian forky/main amd64 libdrm-amdgpu1 amd64 2.4.127-1 [23.8 kB] Get: 185 http://deb.debian.org/debian forky/main amd64 libpciaccess0 amd64 0.17-3+b3 [51.9 kB] Get: 186 http://deb.debian.org/debian forky/main amd64 libdrm-intel1 amd64 2.4.127-1 [65.6 kB] Get: 187 http://deb.debian.org/debian forky/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 188 http://deb.debian.org/debian forky/main amd64 libllvm19 amd64 1:19.1.7-7 [25.9 MB] Get: 189 http://deb.debian.org/debian forky/main amd64 libsensors-config all 1:3.6.2-2 [16.2 kB] Get: 190 http://deb.debian.org/debian forky/main amd64 libsensors5 amd64 1:3.6.2-2 [37.5 kB] Get: 191 http://deb.debian.org/debian forky/main amd64 libxcb-randr0 amd64 1.17.0-2+b1 [117 kB] Get: 192 http://deb.debian.org/debian forky/main amd64 libxcb-sync1 amd64 1.17.0-2+b1 [109 kB] Get: 193 http://deb.debian.org/debian forky/main amd64 libxshmfence1 amd64 1.3.3-1 [10.9 kB] Get: 194 http://deb.debian.org/debian forky/main amd64 mesa-libgallium amd64 25.2.5-1 [10.3 MB] Get: 195 http://deb.debian.org/debian forky/main amd64 libgbm1 amd64 25.2.5-1 [46.0 kB] Get: 196 http://deb.debian.org/debian forky/main amd64 libvulkan1 amd64 1.4.321.0-1 [133 kB] Get: 197 http://deb.debian.org/debian forky/main amd64 libgl1-mesa-dri amd64 25.2.5-1 [47.8 kB] Get: 198 http://deb.debian.org/debian forky/main amd64 libglx-mesa0 amd64 25.2.5-1 [116 kB] Get: 199 http://deb.debian.org/debian forky/main amd64 libglx0 amd64 1.7.0-1+b2 [34.9 kB] Get: 200 http://deb.debian.org/debian forky/main amd64 libgl1 amd64 1.7.0-1+b2 [89.5 kB] Get: 201 http://deb.debian.org/debian forky/main amd64 libasound2-data all 1.2.14-2 [21.1 kB] Get: 202 http://deb.debian.org/debian forky/main amd64 libasound2t64 amd64 1.2.14-2 [420 kB] Get: 203 http://deb.debian.org/debian forky/main amd64 libgif7 amd64 5.2.2-1+b1 [44.2 kB] Get: 204 http://deb.debian.org/debian forky/main amd64 x11-common all 1:7.7+26 [217 kB] Get: 205 http://deb.debian.org/debian forky/main amd64 libxtst6 amd64 2:1.2.5-1 [25.8 kB] Get: 206 http://deb.debian.org/debian forky/main amd64 openjdk-21-jre amd64 21.0.9+10-1 [210 kB] Get: 207 http://deb.debian.org/debian forky/main amd64 default-jre amd64 2:1.21-76 [1068 B] Get: 208 http://deb.debian.org/debian forky/main amd64 openjdk-21-jdk-headless amd64 21.0.9+10-1 [83.0 MB] Get: 209 http://deb.debian.org/debian forky/main amd64 default-jdk-headless amd64 2:1.21-76 [1124 B] Get: 210 http://deb.debian.org/debian forky/main amd64 openjdk-21-jdk amd64 21.0.9+10-1 [3523 kB] Get: 211 http://deb.debian.org/debian forky/main amd64 default-jdk amd64 2:1.21-76 [1076 B] Get: 212 http://deb.debian.org/debian forky/main amd64 libgpg-error0 amd64 1.56-2 [89.1 kB] Get: 213 http://deb.debian.org/debian forky/main amd64 libassuan9 amd64 3.0.2-2 [61.5 kB] Get: 214 http://deb.debian.org/debian forky/main amd64 libgcrypt20 amd64 1.11.2-2 [865 kB] Get: 215 http://deb.debian.org/debian forky/main amd64 gpgconf amd64 2.4.8-4 [129 kB] Get: 216 http://deb.debian.org/debian forky/main amd64 libksba8 amd64 1.6.7-2+b1 [136 kB] Get: 217 http://deb.debian.org/debian forky/main amd64 libnpth0t64 amd64 1.8-3 [23.2 kB] Get: 218 http://deb.debian.org/debian forky/main amd64 gpg amd64 2.4.8-4 [639 kB] Get: 219 http://deb.debian.org/debian forky/main amd64 pinentry-curses amd64 1.3.2-3 [87.8 kB] Get: 220 http://deb.debian.org/debian forky/main amd64 gpg-agent amd64 2.4.8-4 [273 kB] Get: 221 http://deb.debian.org/debian forky/main amd64 libfile-dirlist-perl all 0.05-3 [7600 B] Get: 222 http://deb.debian.org/debian forky/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 223 http://deb.debian.org/debian forky/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get: 224 http://deb.debian.org/debian forky/main amd64 libfile-touch-perl all 0.12-2 [8816 B] Get: 225 http://deb.debian.org/debian forky/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get: 226 http://deb.debian.org/debian forky/main amd64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB] Get: 227 http://deb.debian.org/debian forky/main amd64 libclass-xsaccessor-perl amd64 1.19-4+b5 [36.1 kB] Get: 228 http://deb.debian.org/debian forky/main amd64 libb-hooks-op-check-perl amd64 0.22-3+b2 [10.6 kB] Get: 229 http://deb.debian.org/debian forky/main amd64 libdynaloader-functions-perl all 0.004-2 [12.2 kB] Get: 230 http://deb.debian.org/debian forky/main amd64 libdevel-callchecker-perl amd64 0.009-2 [15.6 kB] Get: 231 http://deb.debian.org/debian forky/main amd64 libparams-classify-perl amd64 0.015-2+b4 [22.5 kB] Get: 232 http://deb.debian.org/debian forky/main amd64 libmodule-runtime-perl all 0.018-1 [17.8 kB] Get: 233 http://deb.debian.org/debian forky/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get: 234 http://deb.debian.org/debian forky/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get: 235 http://deb.debian.org/debian forky/main amd64 libsub-quote-perl all 2.006009-1 [21.3 kB] Get: 236 http://deb.debian.org/debian forky/main amd64 libmoo-perl all 2.005005-1 [58.0 kB] Get: 237 http://deb.debian.org/debian forky/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 238 http://deb.debian.org/debian forky/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 239 http://deb.debian.org/debian forky/main amd64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 240 http://deb.debian.org/debian forky/main amd64 libfile-listing-perl all 6.16-1 [12.4 kB] Get: 241 http://deb.debian.org/debian forky/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get: 242 http://deb.debian.org/debian forky/main amd64 liburi-perl all 5.30-1 [105 kB] Get: 243 http://deb.debian.org/debian forky/main amd64 libhtml-parser-perl amd64 3.83-1+b2 [99.7 kB] Get: 244 http://deb.debian.org/debian forky/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get: 245 http://deb.debian.org/debian forky/main amd64 libclone-perl amd64 0.47-1+b1 [13.9 kB] Get: 246 http://deb.debian.org/debian forky/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get: 247 http://deb.debian.org/debian forky/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 248 http://deb.debian.org/debian forky/main amd64 libhttp-message-perl all 7.01-1 [80.0 kB] Get: 249 http://deb.debian.org/debian forky/main amd64 libhttp-cookies-perl all 6.11-1 [19.1 kB] Get: 250 http://deb.debian.org/debian forky/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get: 251 http://deb.debian.org/debian forky/main amd64 perl-openssl-defaults amd64 7+b2 [6724 B] Get: 252 http://deb.debian.org/debian forky/main amd64 libnet-ssleay-perl amd64 1.94-3 [339 kB] Get: 253 http://deb.debian.org/debian forky/main amd64 libio-socket-ssl-perl all 2.095-1 [226 kB] Get: 254 http://deb.debian.org/debian forky/main amd64 libnet-http-perl all 6.24-1 [23.2 kB] Get: 255 http://deb.debian.org/debian forky/main amd64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB] Get: 256 http://deb.debian.org/debian forky/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 257 http://deb.debian.org/debian forky/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get: 258 http://deb.debian.org/debian forky/main amd64 libwww-perl all 6.81-1 [186 kB] Get: 259 http://deb.debian.org/debian forky/main amd64 patchutils amd64 0.4.3-1 [79.1 kB] Get: 260 http://deb.debian.org/debian forky/main amd64 rsopv amd64 0.6.4-1 [1385 kB] Get: 261 http://deb.debian.org/debian forky/main amd64 wdiff amd64 1.2.2-9 [122 kB] Get: 262 http://deb.debian.org/debian forky/main amd64 devscripts all 2.25.22 [1046 kB] Get: 263 http://deb.debian.org/debian forky/main amd64 fastjar amd64 2:0.98-7 [80.1 kB] Get: 264 http://deb.debian.org/debian forky/main amd64 libgfortran5 amd64 15.2.0-7 [862 kB] Get: 265 http://deb.debian.org/debian forky/main amd64 libgfortran-15-dev amd64 15.2.0-7 [886 kB] Get: 266 http://deb.debian.org/debian forky/main amd64 gfortran-15-x86-64-linux-gnu amd64 15.2.0-7 [12.7 MB] Get: 267 http://deb.debian.org/debian forky/main amd64 gfortran-15 amd64 15.2.0-7 [18.0 kB] Get: 268 http://deb.debian.org/debian forky/main amd64 libnl-3-200 amd64 3.11.0-2 [67.1 kB] Get: 269 http://deb.debian.org/debian forky/main amd64 libnl-route-3-200 amd64 3.11.0-2 [211 kB] Get: 270 http://deb.debian.org/debian forky/main amd64 libibverbs1 amd64 56.1-1+b1 [63.0 kB] Get: 271 http://deb.debian.org/debian forky/main amd64 ibverbs-providers amd64 56.1-1+b1 [361 kB] Get: 272 http://deb.debian.org/debian forky/main amd64 jarwrapper all 0.81 [9784 B] Get: 273 http://deb.debian.org/debian forky/main amd64 javahelper all 0.81 [79.4 kB] Get: 274 http://deb.debian.org/debian forky/main amd64 libhamcrest-java all 2.2-2 [121 kB] Get: 275 http://deb.debian.org/debian forky/main amd64 junit4 all 4.13.2-5 [350 kB] Get: 276 http://deb.debian.org/debian forky/main amd64 libapiguardian-java all 1.1.2-1 [4656 B] Get: 277 http://deb.debian.org/debian forky/main amd64 libopentest4j-java all 1.2.0-4 [9516 B] Get: 278 http://deb.debian.org/debian forky/main amd64 libopentest4j-reporting-java all 0.1.0-M1-2 [49.0 kB] Get: 279 http://deb.debian.org/debian forky/main amd64 libpicocli-java all 4.6.2-2 [390 kB] Get: 280 http://deb.debian.org/debian forky/main amd64 libunivocity-parsers-java all 2.9.1-1 [397 kB] Get: 281 http://deb.debian.org/debian forky/main amd64 junit5 all 5.10.3-1 [2459 kB] Get: 282 http://deb.debian.org/debian forky/main amd64 libgssrpc4t64 amd64 1.21.3-5 [60.0 kB] Get: 283 http://deb.debian.org/debian forky/main amd64 libkadm5clnt-mit12 amd64 1.21.3-5 [42.5 kB] Get: 284 http://deb.debian.org/debian forky/main amd64 libkdb5-10t64 amd64 1.21.3-5 [42.6 kB] Get: 285 http://deb.debian.org/debian forky/main amd64 libkadm5srv-mit12 amd64 1.21.3-5 [54.2 kB] Get: 286 http://deb.debian.org/debian forky/main amd64 krb5-multidev amd64 1.21.3-5 [126 kB] Get: 287 http://deb.debian.org/debian forky/main amd64 libllvm17t64 amd64 1:17.0.6-22+b3 [23.6 MB] Get: 288 http://deb.debian.org/debian forky/main amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3+b2 [13.0 MB] Get: 289 http://deb.debian.org/debian forky/main amd64 libnuma1 amd64 2.0.19-1 [22.2 kB] Get: 290 http://deb.debian.org/debian forky/main amd64 libhsakmt1 amd64 6.2.4+ds-1 [61.1 kB] Get: 291 http://deb.debian.org/debian forky/main amd64 libhsa-runtime64-1 amd64 6.1.2-3 [535 kB] Get: 292 http://deb.debian.org/debian forky/main amd64 libamdhip64-5 amd64 5.7.1-7 [8938 kB] Get: 293 http://deb.debian.org/debian forky/main amd64 libaopalliance-java all 20070526-7 [8572 B] Get: 294 http://deb.debian.org/debian forky/main amd64 libapache-pom-java all 33-2 [5852 B] Get: 295 http://deb.debian.org/debian forky/main amd64 libasm-java all 9.8-2 [391 kB] Get: 296 http://deb.debian.org/debian forky/main amd64 libatinject-jsr330-api-java all 1.0+ds1-6 [5112 B] Get: 297 http://deb.debian.org/debian forky/main amd64 libbrotli-dev amd64 1.1.0-2+b7 [316 kB] Get: 298 http://deb.debian.org/debian forky/main amd64 libbsh-java all 2.0b4-20 [291 kB] Get: 299 http://deb.debian.org/debian forky/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get: 300 http://deb.debian.org/debian forky/main amd64 libcommons-io-java all 2.19.0-1 [524 kB] Get: 301 http://deb.debian.org/debian forky/main amd64 libslf4j-java all 1.7.32-2 [142 kB] Get: 302 http://deb.debian.org/debian forky/main amd64 libmaven-shared-utils-java all 3.4.2-1 [137 kB] Get: 303 http://deb.debian.org/debian forky/main amd64 libcommons-cli-java all 1.6.0-1 [60.4 kB] Get: 304 http://deb.debian.org/debian forky/main amd64 libgeronimo-annotation-1.3-spec-java all 1.3-1 [11.1 kB] Get: 305 http://deb.debian.org/debian forky/main amd64 liberror-prone-java all 2.18.0-1 [22.5 kB] Get: 306 http://deb.debian.org/debian forky/main amd64 libjsr305-java all 0.1~+svn49-12 [26.6 kB] Get: 307 http://deb.debian.org/debian forky/main amd64 libguava-java all 32.0.1-1 [2708 kB] Get: 308 http://deb.debian.org/debian forky/main amd64 libguice-java all 5.1.0-1 [932 kB] Get: 309 http://deb.debian.org/debian forky/main amd64 libmaven-parent-java all 43-2 [6252 B] Get: 310 http://deb.debian.org/debian forky/main amd64 libcommons-lang3-java all 3.17.0-2 [641 kB] Get: 311 http://deb.debian.org/debian forky/main amd64 libplexus-utils2-java all 3.4.2-1 [258 kB] Get: 312 http://deb.debian.org/debian forky/main amd64 libwagon-provider-api-java all 3.5.3-2 [48.3 kB] Get: 313 http://deb.debian.org/debian forky/main amd64 libmaven-resolver-java all 1.9.22-1 [729 kB] Get: 314 http://deb.debian.org/debian forky/main amd64 libplexus-cipher-java all 2.0-1 [14.9 kB] Get: 315 http://deb.debian.org/debian forky/main amd64 libplexus-classworlds-java all 2.7.0-1 [50.6 kB] Get: 316 http://deb.debian.org/debian forky/main amd64 libplexus-component-annotations-java all 2.1.1-1 [7660 B] Get: 317 http://deb.debian.org/debian forky/main amd64 libplexus-interpolation-java all 1.27-1 [76.8 kB] Get: 318 http://deb.debian.org/debian forky/main amd64 libplexus-sec-dispatcher-java all 2.0-3 [28.3 kB] Get: 319 http://deb.debian.org/debian forky/main amd64 libgeronimo-interceptor-3.0-spec-java all 1.0.1-5 [8444 B] Get: 320 http://deb.debian.org/debian forky/main amd64 libcdi-api-java all 1.2-4 [55.3 kB] Get: 321 http://deb.debian.org/debian forky/main amd64 libsisu-inject-java all 0.3.5-1 [352 kB] Get: 322 http://deb.debian.org/debian forky/main amd64 libsisu-plexus-java all 0.3.5-1 [183 kB] Get: 323 http://deb.debian.org/debian forky/main amd64 libmaven3-core-java all 3.9.9-1 [1661 kB] Get: 324 http://deb.debian.org/debian forky/main amd64 libmaven-shared-io-java all 3.0.0-4 [33.2 kB] Get: 325 http://deb.debian.org/debian forky/main amd64 libmaven-file-management-java all 3.0.0-2 [35.1 kB] Get: 326 http://deb.debian.org/debian forky/main amd64 libbuild-helper-maven-plugin-java all 3.3.0-1 [59.5 kB] Get: 327 http://deb.debian.org/debian forky/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] Get: 328 http://deb.debian.org/debian forky/main amd64 libcatch2-dev amd64 3.7.1-0.6 [646 kB] Get: 329 http://deb.debian.org/debian forky/main amd64 libcommons-collections3-java all 3.2.2-3 [530 kB] Get: 330 http://deb.debian.org/debian forky/main amd64 libcommons-logging-java all 1.3.0-2 [68.6 kB] Get: 331 http://deb.debian.org/debian forky/main amd64 libcommons-beanutils-java all 1.10.1-1.1 [231 kB] Get: 332 http://deb.debian.org/debian forky/main amd64 libcommons-codec-java all 1.18.0-1 [304 kB] Get: 333 http://deb.debian.org/debian forky/main amd64 libcommons-collections4-java all 4.4-2 [682 kB] Get: 334 http://deb.debian.org/debian forky/main amd64 libcommons-compress-java all 1.27.1-2 [641 kB] Get: 335 http://deb.debian.org/debian forky/main amd64 libcommons-digester-java all 1.8.1-7 [138 kB] Get: 336 http://deb.debian.org/debian forky/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get: 337 http://deb.debian.org/debian forky/main amd64 libcommons-lang-java all 2.6-12 [273 kB] Get: 338 http://deb.debian.org/debian forky/main amd64 libplexus-io-java all 3.3.1-2 [65.3 kB] Get: 339 http://deb.debian.org/debian forky/main amd64 libsnappy1v5 amd64 1.2.2-2 [30.7 kB] Get: 340 http://deb.debian.org/debian forky/main amd64 libsnappy-jni amd64 1.1.10.8-1 [6548 B] Get: 341 http://deb.debian.org/debian forky/main amd64 libsnappy-java all 1.1.10.8-1 [87.8 kB] Get: 342 http://deb.debian.org/debian forky/main amd64 libxz-java all 1.9-1 [143 kB] Get: 343 http://deb.debian.org/debian forky/main amd64 libplexus-archiver-java all 4.6.1-1 [187 kB] Get: 344 http://deb.debian.org/debian forky/main amd64 libmaven-archiver-java all 3.6.2-1 [26.1 kB] Get: 345 http://deb.debian.org/debian forky/main amd64 libmaven-jar-plugin-java all 3.3.0-2 [24.0 kB] Get: 346 http://deb.debian.org/debian forky/main amd64 libcommons-text-java all 1.13.1-1 [228 kB] Get: 347 http://deb.debian.org/debian forky/main amd64 sgml-base all 1.31+nmu1 [10.9 kB] Get: 348 http://deb.debian.org/debian forky/main amd64 libcommons-validator-java all 1:1.9.0-1 [191 kB] Get: 349 http://deb.debian.org/debian forky/main amd64 libidn2-dev amd64 2.3.8-4 [103 kB] Get: 350 http://deb.debian.org/debian forky/main amd64 libkrb5-dev amd64 1.21.3-5 [16.1 kB] Get: 351 http://deb.debian.org/debian forky/main amd64 libldap-dev amd64 2.6.10+dfsg-1 [312 kB] Get: 352 http://deb.debian.org/debian forky/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 353 http://deb.debian.org/debian forky/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 354 http://deb.debian.org/debian forky/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 355 http://deb.debian.org/debian forky/main amd64 libnghttp2-dev amd64 1.64.0-1.1+b1 [117 kB] Get: 356 http://deb.debian.org/debian forky/main amd64 libnghttp3-dev amd64 1.12.0-1 [95.5 kB] Get: 357 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-ossl-dev amd64 1.16.0-1 [28.4 kB] Get: 358 http://deb.debian.org/debian forky/main amd64 libngtcp2-dev amd64 1.16.0-1 [193 kB] Get: 359 http://deb.debian.org/debian forky/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get: 360 http://deb.debian.org/debian forky/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-5 [330 kB] Get: 361 http://deb.debian.org/debian forky/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-5 [658 kB] Get: 362 http://deb.debian.org/debian forky/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get: 363 http://deb.debian.org/debian forky/main amd64 libunbound8 amd64 1.24.1-1 [615 kB] Get: 364 http://deb.debian.org/debian forky/main amd64 libgnutls-dane0t64 amd64 3.8.10-3 [458 kB] Get: 365 http://deb.debian.org/debian forky/main amd64 libgnutls-openssl27t64 amd64 3.8.10-3 [458 kB] Get: 366 http://deb.debian.org/debian forky/main amd64 libp11-kit-dev amd64 0.25.9-2 [220 kB] Get: 367 http://deb.debian.org/debian forky/main amd64 libtasn1-6-dev amd64 4.20.0-2 [99.2 kB] Get: 368 http://deb.debian.org/debian forky/main amd64 nettle-dev amd64 3.10.2-1 [1322 kB] Get: 369 http://deb.debian.org/debian forky/main amd64 libgnutls28-dev amd64 3.8.10-3 [1431 kB] Get: 370 http://deb.debian.org/debian forky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 371 http://deb.debian.org/debian forky/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-3 [67.9 kB] Get: 372 http://deb.debian.org/debian forky/main amd64 libssl-dev amd64 3.5.4-1 [2980 kB] Get: 373 http://deb.debian.org/debian forky/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get: 374 http://deb.debian.org/debian forky/main amd64 libzstd-dev amd64 1.5.7+dfsg-2 [375 kB] Get: 375 http://deb.debian.org/debian forky/main amd64 libcurl4-openssl-dev amd64 8.17.0~rc2-1 [530 kB] Get: 376 http://deb.debian.org/debian forky/main amd64 libcurlpp0t64 amd64 0.8.1-6 [28.3 kB] Get: 377 http://deb.debian.org/debian forky/main amd64 libcurlpp-dev amd64 0.8.1-6 [59.7 kB] Get: 378 http://deb.debian.org/debian forky/main amd64 libjaxen-java all 1.2.0-1 [214 kB] Get: 379 http://deb.debian.org/debian forky/main amd64 libdom4j-java all 2.1.4-1 [312 kB] Get: 380 http://deb.debian.org/debian forky/main amd64 libdoxia-core-java all 2.0.0-1 [149 kB] Get: 381 http://deb.debian.org/debian forky/main amd64 libplexus-xml-java all 3.0.1-2 [93.7 kB] Get: 382 http://deb.debian.org/debian forky/main amd64 libdoxia-java all 2.0.0-1 [113 kB] Get: 383 http://deb.debian.org/debian forky/main amd64 libmaven-reporting-api-java all 4.0.0-1 [6724 B] Get: 384 http://deb.debian.org/debian forky/main amd64 libxbean-reflect-java all 4.5-9 [132 kB] Get: 385 http://deb.debian.org/debian forky/main amd64 libplexus-container-default-java all 2.1.1-1 [193 kB] Get: 386 http://deb.debian.org/debian forky/main amd64 libplexus-i18n-java all 1.0-beta-10-6 [13.4 kB] Get: 387 http://deb.debian.org/debian forky/main amd64 velocity all 1.7-7 [431 kB] Get: 388 http://deb.debian.org/debian forky/main amd64 libplexus-velocity-java all 1.2-4 [9676 B] Get: 389 http://deb.debian.org/debian forky/main amd64 liboro-java all 2.0.8a-15 [69.3 kB] Get: 390 http://deb.debian.org/debian forky/main amd64 libvelocity-tools-java all 2.0-9 [311 kB] Get: 391 http://deb.debian.org/debian forky/main amd64 libdoxia-sitetools-java all 2.0.0-1 [176 kB] Get: 392 http://deb.debian.org/debian forky/main amd64 libel-api-java all 3.0.0-3 [64.9 kB] Get: 393 http://deb.debian.org/debian forky/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b1 [132 kB] Get: 394 http://deb.debian.org/debian forky/main amd64 libevent-extra-2.1-7t64 amd64 2.1.12-stable-10+b1 [108 kB] Get: 395 http://deb.debian.org/debian forky/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10+b1 [54.3 kB] Get: 396 http://deb.debian.org/debian forky/main amd64 libevent-openssl-2.1-7t64 amd64 2.1.12-stable-10+b1 [61.1 kB] Get: 397 http://deb.debian.org/debian forky/main amd64 libevent-dev amd64 2.1.12-stable-10+b1 [305 kB] Get: 398 http://deb.debian.org/debian forky/main amd64 libezmorph-java all 1.0.6-4 [75.9 kB] Get: 399 http://deb.debian.org/debian forky/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB] Get: 400 http://deb.debian.org/debian forky/main amd64 librdmacm1t64 amd64 56.1-1+b1 [71.0 kB] Get: 401 http://deb.debian.org/debian forky/main amd64 libfabric1 amd64 2.1.0-1.1 [706 kB] Get: 402 http://deb.debian.org/debian forky/main amd64 libfmt10 amd64 10.1.1+ds1-4 [127 kB] Get: 403 http://deb.debian.org/debian forky/main amd64 libfmt-dev amd64 10.1.1+ds1-4 [177 kB] Get: 404 http://deb.debian.org/debian forky/main amd64 libgetopt-java all 1.0.14+dfsg-6 [25.7 kB] Get: 405 http://deb.debian.org/debian forky/main amd64 libgoogle-gson-java all 2.10.1-1 [262 kB] Get: 406 http://deb.debian.org/debian forky/main amd64 libxml-commons-external-java all 1.4.01-6 [240 kB] Get: 407 http://deb.debian.org/debian forky/main amd64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get: 408 http://deb.debian.org/debian forky/main amd64 libxerces2-java all 2.12.2-1 [1440 kB] Get: 409 http://deb.debian.org/debian forky/main amd64 libxom-java all 1.3.9-1 [174 kB] Get: 410 http://deb.debian.org/debian forky/main amd64 libjson-java all 3.2.0+dfsg-2 [142 kB] Get: 411 http://deb.debian.org/debian forky/main amd64 libmbedcrypto16 amd64 3.6.4-2 [360 kB] Get: 412 http://deb.debian.org/debian forky/main amd64 libmbedx509-7 amd64 3.6.4-2 [151 kB] Get: 413 http://deb.debian.org/debian forky/main amd64 libmbedtls21 amd64 3.6.4-2 [242 kB] Get: 414 http://deb.debian.org/debian forky/main amd64 ncbi-vdb-data all 3.2.1+dfsg-2 [88.5 kB] Get: 415 http://deb.debian.org/debian forky/main amd64 libncbi-vdb3 amd64 3.2.1+dfsg-2 [1164 kB] Get: 416 http://deb.debian.org/debian forky/main amd64 libncbi-ngs3 amd64 3.2.1+dfsg-5 [159 kB] Get: 417 http://deb.debian.org/debian forky/main amd64 libngs-jni amd64 3.2.1+dfsg-5 [27.8 kB] Get: 418 http://deb.debian.org/debian forky/main amd64 libngs-java amd64 3.2.1+dfsg-5 [114 kB] Get: 419 http://deb.debian.org/debian forky/main amd64 librhino-java all 1.7.15-1 [1382 kB] Get: 420 http://deb.debian.org/debian forky/main amd64 libhtsjdk-java all 4.1.3+dfsg-2 [1841 kB] Get: 421 http://deb.debian.org/debian forky/main amd64 libhttpcore-java all 4.4.16-1 [636 kB] Get: 422 http://deb.debian.org/debian forky/main amd64 libhttpclient-java all 4.5.14-1 [1247 kB] Get: 423 http://deb.debian.org/debian forky/main amd64 libhwloc15 amd64 2.12.2-1 [164 kB] Get: 424 http://deb.debian.org/debian forky/main amd64 libnuma-dev amd64 2.0.19-1 [36.5 kB] Get: 425 http://deb.debian.org/debian forky/main amd64 libltdl7 amd64 2.5.4-7 [416 kB] Get: 426 http://deb.debian.org/debian forky/main amd64 libltdl-dev amd64 2.5.4-7 [168 kB] Get: 427 http://deb.debian.org/debian forky/main amd64 libhwloc-dev amd64 2.12.2-1 [257 kB] Get: 428 http://deb.debian.org/debian forky/main amd64 libxnvctrl0 amd64 535.171.04-1+b2 [14.2 kB] Get: 429 http://deb.debian.org/debian forky/main amd64 libze1 amd64 1.24.1-2 [514 kB] Get: 430 http://deb.debian.org/debian forky/main amd64 ocl-icd-libopencl1 amd64 2.3.4-1 [43.0 kB] Get: 431 http://deb.debian.org/debian forky/main amd64 libhwloc-plugins amd64 2.12.2-1 [23.5 kB] Get: 432 http://deb.debian.org/debian forky/main amd64 libibumad3 amd64 56.1-1+b1 [30.1 kB] Get: 433 http://deb.debian.org/debian forky/main amd64 libibmad5 amd64 56.1-1+b1 [44.9 kB] Get: 434 http://deb.debian.org/debian forky/main amd64 libnl-3-dev amd64 3.11.0-2 [110 kB] Get: 435 http://deb.debian.org/debian forky/main amd64 libnl-route-3-dev amd64 3.11.0-2 [235 kB] Get: 436 http://deb.debian.org/debian forky/main amd64 libibverbs-dev amd64 56.1-1+b1 [659 kB] Get: 437 http://deb.debian.org/debian forky/main amd64 libjansi-java all 2.4.1-2 [100 kB] Get: 438 http://deb.debian.org/debian forky/main amd64 libjcommander-java all 1.71-4 [73.0 kB] Get: 439 http://deb.debian.org/debian forky/main amd64 libjsp-api-java all 2.3.4-3 [53.7 kB] Get: 440 http://deb.debian.org/debian forky/main amd64 libservlet-api-java all 4.0.1-2 [81.0 kB] Get: 441 http://deb.debian.org/debian forky/main amd64 libwebsocket-api-java all 1.1-2 [40.1 kB] Get: 442 http://deb.debian.org/debian forky/main amd64 libjetty9-java all 9.4.57-1.1 [2965 kB] Get: 443 http://deb.debian.org/debian forky/main amd64 libjs-jquery all 3.7.1+dfsg+~3.5.33-1 [319 kB] Get: 444 http://deb.debian.org/debian forky/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 445 http://deb.debian.org/debian forky/main amd64 libjson-simple-java all 2.3.0-2 [61.7 kB] Get: 446 http://deb.debian.org/debian forky/main amd64 libjsoup-java all 1.15.3-1 [431 kB] Get: 447 http://deb.debian.org/debian forky/main amd64 libjtidy-java all 7+svn20110807-6 [251 kB] Get: 448 http://deb.debian.org/debian forky/main amd64 liblightcouch-java all 0.2.0-1 [75.0 kB] Get: 449 http://deb.debian.org/debian forky/main amd64 libmongodb-java all 3.6.3-2 [1901 kB] Get: 450 http://deb.debian.org/debian forky/main amd64 liblog4j2-java all 2.19.0-2 [2310 kB] Get: 451 http://deb.debian.org/debian forky/main amd64 liblzma-dev amd64 5.8.1-2 [349 kB] Get: 452 http://deb.debian.org/debian forky/main amd64 libmaven-antrun-plugin-java all 3.1.0-1 [36.9 kB] Get: 453 http://deb.debian.org/debian forky/main amd64 libmaven-clean-plugin-java all 3.2.0-2 [32.2 kB] Get: 454 http://deb.debian.org/debian forky/main amd64 libmaven-common-artifact-filters-java all 3.4.0-1 [47.7 kB] Get: 455 http://deb.debian.org/debian forky/main amd64 libmaven-shared-incremental-java all 1.1-6 [9916 B] Get: 456 http://deb.debian.org/debian forky/main amd64 libplexus-compiler-java all 2.13.0-1 [99.5 kB] Get: 457 http://deb.debian.org/debian forky/main amd64 libqdox2-java all 2.0.3-1 [296 kB] Get: 458 http://deb.debian.org/debian forky/main amd64 libplexus-languages-java all 1.1.1-3 [47.8 kB] Get: 459 http://deb.debian.org/debian forky/main amd64 libmaven-compiler-plugin-java all 3.13.0-1 [78.8 kB] Get: 460 http://deb.debian.org/debian forky/main amd64 libplexus-build-api-java all 0.0.7-4 [10.3 kB] Get: 461 http://deb.debian.org/debian forky/main amd64 libmaven-filtering-java all 3.4.0-1 [51.4 kB] Get: 462 http://deb.debian.org/debian forky/main amd64 libplexus-ant-factory-java all 1.0~alpha2.1-5 [11.7 kB] Get: 463 http://deb.debian.org/debian forky/main amd64 libplexus-container-default1.5-java all 2.1.1-1 [4476 B] Get: 464 http://deb.debian.org/debian forky/main amd64 libplexus-bsh-factory-java all 1.0~alpha7-5 [8360 B] Get: 465 http://deb.debian.org/debian forky/main amd64 libmaven-plugin-tools-java all 3.10.2-2 [245 kB] Get: 466 http://deb.debian.org/debian forky/main amd64 libmaven-reporting-exec-java all 2.0.0-1 [23.9 kB] Get: 467 http://deb.debian.org/debian forky/main amd64 libmaven-reporting-impl-java all 4.0.0-1 [17.6 kB] Get: 468 http://deb.debian.org/debian forky/main amd64 libmaven-resources-plugin-java all 3.3.1-1 [27.5 kB] Get: 469 http://deb.debian.org/debian forky/main amd64 libmaven-site-plugin-java all 3.21.0-1 [106 kB] Get: 470 http://deb.debian.org/debian forky/main amd64 libmunge2 amd64 0.5.16-1 [19.7 kB] Get: 471 http://deb.debian.org/debian forky/main amd64 libmuparserx4.0.12 amd64 4.0.12-2 [198 kB] Get: 472 http://deb.debian.org/debian forky/main amd64 libmuparserx-dev amd64 4.0.12-2 [38.5 kB] Get: 473 http://deb.debian.org/debian forky/main amd64 libpmix2t64 amd64 6.0.0+really5.0.8-1 [668 kB] Get: 474 http://deb.debian.org/debian forky/main amd64 libucx0 amd64 1.19.0+ds-1 [1336 kB] Get: 475 http://deb.debian.org/debian forky/main amd64 libopenmpi40 amd64 5.0.8-10+b1 [2414 kB] Get: 476 http://deb.debian.org/debian forky/main amd64 openmpi-common all 5.0.8-10 [97.5 kB] Get: 477 http://deb.debian.org/debian forky/main amd64 openmpi-bin amd64 5.0.8-10+b1 [190 kB] Get: 478 http://deb.debian.org/debian forky/main amd64 libopenmpi-dev amd64 5.0.8-10+b1 [1090 kB] Get: 479 http://deb.debian.org/debian forky/main amd64 libprotobuf32t64 amd64 3.21.12-14 [988 kB] Get: 480 http://deb.debian.org/debian forky/main amd64 libprotobuf-lite32t64 amd64 3.21.12-14 [281 kB] Get: 481 http://deb.debian.org/debian forky/main amd64 libprotobuf-dev amd64 3.21.12-14 [1338 kB] Get: 482 http://deb.debian.org/debian forky/main amd64 libprotobuf-java all 3.21.12-14 [1268 kB] Get: 483 http://deb.debian.org/debian forky/main amd64 libprotoc32t64 amd64 3.21.12-14 [938 kB] Get: 484 http://deb.debian.org/debian forky/main amd64 libspdlog1.15 amd64 1:1.15.3+ds-1 [109 kB] Get: 485 http://deb.debian.org/debian forky/main amd64 libspdlog-dev amd64 1:1.15.3+ds-1 [91.9 kB] Get: 486 http://deb.debian.org/debian forky/main amd64 libsurefire-java all 2.22.3-4 [1391 kB] Get: 487 http://deb.debian.org/debian forky/main amd64 libwagon-file-java all 3.5.3-2 [8452 B] Get: 488 http://deb.debian.org/debian forky/main amd64 libwagon-http-java all 3.5.3-2 [49.6 kB] Get: 489 http://deb.debian.org/debian forky/main amd64 libxml2-utils amd64 2.14.6+dfsg-0.1 [123 kB] Get: 490 http://deb.debian.org/debian forky/main amd64 maven all 3.9.9-1 [19.7 kB] Get: 491 http://deb.debian.org/debian forky/main amd64 maven-repo-helper all 1.12 [136 kB] Get: 492 http://deb.debian.org/debian forky/main amd64 unzip amd64 6.0-29 [173 kB] Get: 493 http://deb.debian.org/debian forky/main amd64 maven-debian-helper all 2.6.9 [104 kB] Get: 494 http://deb.debian.org/debian forky/main amd64 mpi-default-dev amd64 1.19 [3432 B] Get: 495 http://deb.debian.org/debian forky/main amd64 protobuf-compiler amd64 3.21.12-14 [85.0 kB] Get: 496 http://deb.debian.org/debian forky/main amd64 rapidjson-dev all 1.1.0+dfsg2-7.6 [98.2 kB] Get: 497 http://deb.debian.org/debian forky/main amd64 testng all 6.9.12-4 [795 kB] Get: 498 http://deb.debian.org/debian forky/main amd64 uuid-dev amd64 2.41.2-4 [49.9 kB] Fetched 390 MB in 4s (94.0 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 ... 19869 files and directories currently installed.) Preparing to unpack .../libsystemd-shared_258.1-2_amd64.deb ... Unpacking libsystemd-shared:amd64 (258.1-2) ... Setting up libsystemd-shared:amd64 (258.1-2) ... Selecting previously unselected package systemd. (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 ... 19877 files and directories currently installed.) Preparing to unpack .../systemd_258.1-2_amd64.deb ... Unpacking systemd (258.1-2) ... Setting up systemd (258.1-2) ... Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' -> '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' -> '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'. Initializing machine ID from random generator. Creating group 'systemd-journal' with GID 999. Creating group 'systemd-network' with GID 998. Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998. /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. Selecting previously unselected package systemd-sysv. (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 ... 20875 files and directories currently installed.) Preparing to unpack .../00-systemd-sysv_258.1-2_amd64.deb ... Unpacking systemd-sysv (258.1-2) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../01-libdbus-1-3_1.16.2-2_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.16.2-2) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../02-dbus-bin_1.16.2-2_amd64.deb ... Unpacking dbus-bin (1.16.2-2) ... Selecting previously unselected package dbus-session-bus-common. Preparing to unpack .../03-dbus-session-bus-common_1.16.2-2_all.deb ... Unpacking dbus-session-bus-common (1.16.2-2) ... Selecting previously unselected package libapparmor1:amd64. Preparing to unpack .../04-libapparmor1_4.1.0-1_amd64.deb ... Unpacking libapparmor1:amd64 (4.1.0-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../05-libexpat1_2.7.3-1_amd64.deb ... Unpacking libexpat1:amd64 (2.7.3-1) ... Selecting previously unselected package dbus-daemon. Preparing to unpack .../06-dbus-daemon_1.16.2-2_amd64.deb ... Unpacking dbus-daemon (1.16.2-2) ... Selecting previously unselected package dbus-system-bus-common. Preparing to unpack .../07-dbus-system-bus-common_1.16.2-2_all.deb ... Unpacking dbus-system-bus-common (1.16.2-2) ... Selecting previously unselected package dbus. Preparing to unpack .../08-dbus_1.16.2-2_amd64.deb ... Unpacking dbus (1.16.2-2) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../09-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package binfmt-support. Preparing to unpack .../10-binfmt-support_2.2.2-7_amd64.deb ... Unpacking binfmt-support (2.2.2-7) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../11-libpython3.13-minimal_3.13.9-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.9-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../12-python3.13-minimal_3.13.9-1_amd64.deb ... Unpacking python3.13-minimal (3.13.9-1) ... Setting up libpython3.13-minimal:amd64 (3.13.9-1) ... Setting up libexpat1:amd64 (2.7.3-1) ... Setting up python3.13-minimal (3.13.9-1) ... Selecting previously unselected package python3-minimal. (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 ... 21325 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.7-1_amd64.deb ... Unpacking python3-minimal (3.13.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_14.0.0_all.deb ... Unpacking media-types (14.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025b-5_all.deb ... Unpacking tzdata (2025b-5) ... Selecting previously unselected package libffi8:amd64. Preparing to unpack .../4-libffi8_3.5.2-2_amd64.deb ... Unpacking libffi8:amd64 (3.5.2-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.3-3_all.deb ... Unpacking readline-common (8.3-3) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../6-libreadline8t64_8.3-3_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.3-3) ... Selecting previously unselected package libpython3.13-stdlib:amd64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.9-1_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.9-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.9-1_amd64.deb ... Unpacking python3.13 (3.13.9-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../9-libpython3-stdlib_3.13.7-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.13.7-1) ... Setting up python3-minimal (3.13.7-1) ... Selecting previously unselected package python3. (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 ... 22340 files and directories currently installed.) Preparing to unpack .../000-python3_3.13.7-1_amd64.deb ... Unpacking python3 (3.13.7-1) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../001-libproc2-0_2%3a4.0.4-9_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-9) ... Selecting previously unselected package procps. Preparing to unpack .../002-procps_2%3a4.0.4-9_amd64.deb ... Unpacking procps (2:4.0.4-9) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package openssl. Preparing to unpack .../004-openssl_3.5.4-1_amd64.deb ... Unpacking openssl (3.5.4-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../005-ca-certificates_20250419_all.deb ... Unpacking ca-certificates (20250419) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../006-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../007-libmagic1t64_1%3a5.46-5_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../008-file_1%3a5.46-5_amd64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../009-gettext-base_0.23.1-2+b1_amd64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../010-libuchardet0_0.0.8-2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../011-groff-base_1.23.0-9_amd64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package libpam-systemd:amd64. Preparing to unpack .../012-libpam-systemd_258.1-2_amd64.deb ... Unpacking libpam-systemd:amd64 (258.1-2) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../013-bsdextrautils_2.41.2-4_amd64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package man-db. Preparing to unpack .../014-man-db_2.13.1-1_amd64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../015-libedit2_3.1-20250104-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20250104-1) ... Selecting previously unselected package libcbor0.10:amd64. Preparing to unpack .../016-libcbor0.10_0.10.2-2_amd64.deb ... Unpacking libcbor0.10:amd64 (0.10.2-2) ... Selecting previously unselected package libfido2-1:amd64. Preparing to unpack .../017-libfido2-1_1.16.0-2_amd64.deb ... Unpacking libfido2-1:amd64 (1.16.0-2) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../018-libkrb5support0_1.21.3-5_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-5) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../019-libcom-err2_1.47.2-3+b3_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2-3+b3) ... 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Setting up libpixman-1-0:amd64 (0.46.4-1) ... Setting up libjcommander-java (1.71-4) ... Setting up wdiff (1.2.2-9) ... Setting up libsharpyuv0:amd64 (1.5.0-0.1) ... Setting up libpciaccess0:amd64 (0.17-3+b3) ... Setting up libslf4j-java (1.7.32-2) ... Setting up libprotobuf32t64:amd64 (3.21.12-14) ... Setting up libfile-which-perl (1.27-2) ... Setting up systemd-sysv (258.1-2) ... Setting up libxau6:amd64 (1:1.0.11-1) ... Setting up libxdmcp6:amd64 (1:1.1.5-1) ... Setting up libplexus-utils2-java (3.4.2-1) ... Setting up libnpth0t64:amd64 (1.8-3) ... Setting up libkeyutils1:amd64 (1.6.3-6) ... Setting up libapparmor1:amd64 (4.1.0-1) ... Setting up libplexus-classworlds-java (2.7.0-1) ... Setting up libxcb1:amd64 (1.17.0-2+b1) ... Setting up libopentest4j-reporting-java (0.1.0-M1-2) ... Setting up libplexus-build-api-java (0.0.7-4) ... Setting up libxcb-xfixes0:amd64 (1.17.0-2+b1) ... Setting up libzstd-dev:amd64 (1.5.7+dfsg-2) ... Setting up liblerc4:amd64 (4.0.0+ds-5) ... Setting up libjsr305-java (0.1~+svn49-12) ... Setting up libmuparserx4.0.12:amd64 (4.0.12-2) ... Setting up bsdextrautils (2.41.2-4) ... Setting up hicolor-icon-theme (0.18-2) ... Setting up libgpg-error0:amd64 (1.56-2) ... Setting up java-common (0.76) ... Setting up libdynaloader-functions-perl (0.004-2) ... Setting up libdatrie1:amd64 (0.2.13-4) ... Setting up libclass-method-modifiers-perl (2.15-1) ... Setting up libqdox2-java (2.0.3-1) ... Setting up libaopalliance-java (20070526-7) ... Setting up libmuparserx-dev:amd64 (4.0.12-2) ... Setting up libcommons-cli-java (1.6.0-1) ... Setting up libmagic-mgc (1:5.46-5) ... Setting up libxcb-render0:amd64 (1.17.0-2+b1) ... Setting up libcbor0.10:amd64 (0.10.2-2) ... Setting up libclone-perl:amd64 (0.47-1+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libgetopt-java (1.0.14+dfsg-6) ... Setting up libglvnd0:amd64 (1.7.0-1+b2) ... Setting up libgoogle-gson-java (2.10.1-1) ... Setting up libxml2-16:amd64 (2.14.6+dfsg-0.1) ... Setting up libhtml-tagset-perl (3.24-1) ... Setting up libxcb-glx0:amd64 (1.17.0-2+b1) ... Setting up unzip (6.0-29) ... Setting up libdebhelper-perl (13.28) ... Setting up libbrotli1:amd64 (1.1.0-2+b7) ... Setting up libedit2:amd64 (3.1-20250104-1) ... Setting up liblwp-mediatypes-perl (6.04-2) ... Setting up libgdk-pixbuf2.0-common (2.44.4+dfsg-1) ... Setting up libuv1t64:amd64 (1.51.0-2) ... Setting up libmagic1t64:amd64 (1:5.46-5) ... Setting up libpicocli-java (4.6.2-2) ... Setting up libasm-java (9.8-2) ... Setting up x11-common (1:7.7+26) ... invoke-rc.d: could not determine current runlevel Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libtry-tiny-perl (0.32-1) ... Setting up libsensors-config (1:3.6.2-2) ... Setting up libnghttp2-14:amd64 (1.64.0-1.1+b1) ... Setting up libibumad3:amd64 (56.1-1+b1) ... Setting up libdeflate0:amd64 (1.23-2) ... Setting up perl-openssl-defaults:amd64 (7+b2) ... Setting up gettext-base (0.23.1-2+b1) ... Setting up m4 (1.4.20-2) ... Setting up libel-api-java (3.0.0-3) ... Setting up libevent-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up libgcrypt20:amd64 (1.11.2-2) ... Setting up xkb-data (2.42-1) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libplexus-component-annotations-java (2.1.1-1) ... Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ... Setting up libibmad5:amd64 (56.1-1+b1) ... Setting up libcom-err2:amd64 (1.47.2-3+b3) ... Setting up file (1:5.46-5) ... Setting up libjson-simple-java (2.3.0-2) ... Setting up libunivocity-parsers-java (2.9.1-1) ... Setting up libjbig0:amd64 (2.1-6.1+b2) ... Setting up libze1:amd64 (1.24.1-2) ... Setting up libelf1t64:amd64 (0.193-3) ... Setting up rapidjson-dev (1.1.0+dfsg2-7.6) ... Setting up liboro-java (2.0.8a-15) ... Setting up libsnappy1v5:amd64 (1.2.2-2) ... Setting up libkrb5support0:amd64 (1.21.3-5) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-10) ... Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' Local time is now: Fri Oct 31 10:41:10 UTC 2025. Universal Time is now: Fri Oct 31 10:41:10 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:amd64 (1.17.0-2+b1) ... Setting up libgeronimo-annotation-1.3-spec-java (1.3-1) ... Setting up libgeronimo-interceptor-3.0-spec-java (1.0.1-5) ... Setting up libcommons-collections3-java (3.2.2-3) ... Setting up libasound2-data (1.2.14-2) ... Setting up libio-string-perl (1.08-4) ... Setting up librhino-java (1.7.15-1) ... Setting up autotools-dev (20240727.1) ... Setting up libz3-4:amd64 (4.13.3-1) ... Setting up rsopv (0.6.4-1) ... update-alternatives: using /usr/bin/rsopv to provide /usr/bin/sopv (sopv) in auto mode Setting up libunbound8:amd64 (1.24.1-1) ... Setting up libpkgconf3:amd64 (1.8.1-4) ... Setting up libgmpxx4ldbl:amd64 (2:6.3.0+dfsg-5) ... Setting up libasound2t64:amd64 (1.2.14-2) ... Setting up libmunge2:amd64 (0.5.16-1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-4) ... Setting up libjaxen-java (1.2.0-1) ... Setting up libapiguardian-java (1.1.2-1) ... Setting up libx11-data (2:1.8.12-1) ... Setting up libepoxy0:amd64 (1.5.10-2) ... Setting up libnspr4:amd64 (2:4.37-1) ... Setting up libxcb-sync1:amd64 (1.17.0-2+b1) ... Setting up libjsoncpp26:amd64 (1.9.6-4) ... Setting up libjtidy-java (7+svn20110807-6) ... Setting up uuid-dev:amd64 (2.41.2-4) ... Setting up libjansi-java (2.4.1-2) ... Setting up libapache-pom-java (33-2) ... Setting up libavahi-common-data:amd64 (0.8-17) ... Setting up libatinject-jsr330-api-java (1.0+ds1-6) ... Setting up libdbus-1-3:amd64 (1.16.2-2) ... Setting up libwebsocket-api-java (1.1-2) ... Setting up libfribidi0:amd64 (1.0.16-3) ... Setting up libproc2-0:amd64 (2:4.0.4-9) ... Setting up comerr-dev:amd64 (2.1-1.47.2-3+b3) ... Setting up libplexus-interpolation-java (1.27-1) ... Setting up libunistring5:amd64 (1.3-2) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libssl-dev:amd64 (3.5.4-1) ... Setting up libpng16-16t64:amd64 (1.6.50-1) ... Setting up libhwloc15:amd64 (2.12.2-1) ... Setting up libxml-commons-resolver1.1-java (1.2-11) ... Setting up libxz-java (1.9-1) ... Setting up libio-html-perl (1.004-3) ... Setting up autopoint (0.23.1-2) ... Setting up binfmt-support (2.2.2-7) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Created symlink '/etc/systemd/system/multi-user.target.wants/binfmt-support.service' -> '/usr/lib/systemd/system/binfmt-support.service'. Setting up libb-hooks-op-check-perl:amd64 (0.22-3+b2) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libpcsclite1:amd64 (2.4.0-1) ... Setting up pkgconf-bin (1.8.1-4) ... Setting up libsensors5:amd64 (1:3.6.2-2) ... Setting up libmongodb-java (3.6.3-2) ... Setting up libk5crypto3:amd64 (1.21.3-5) ... Setting up libltdl7:amd64 (2.5.4-7) ... Setting up libhamcrest-java (2.2-2) ... Setting up libbsh-java (2.0b4-20) ... Setting up libjsp-api-java (2.3.4-3) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-10) ... Setting up libgfortran5:amd64 (15.2.0-7) ... Setting up libvulkan1:amd64 (1.4.321.0-1) ... Setting up autoconf (2.72-3.1) ... Setting up libnghttp3-9:amd64 (1.12.0-1) ... Setting up libwebp7:amd64 (1.5.0-0.1) ... Setting up libnghttp3-dev:amd64 (1.12.0-1) ... Setting up libtimedate-perl (2.3300-2) ... Setting up liblzma-dev:amd64 (5.8.1-2) ... Setting up libgif7:amd64 (5.2.2-1+b1) ... Setting up zlib1g-dev:amd64 (1:1.3.dfsg+really1.3.1-1+b1) ... Setting up libffi8:amd64 (3.5.2-2) ... Setting up libnuma1:amd64 (2.0.19-1) ... Setting up dwz (0.16-2) ... Setting up sensible-utils (0.0.26) ... Setting up ocl-icd-libopencl1:amd64 (2.3.4-1) ... Setting up libxshmfence1:amd64 (1.3.3-1) ... Setting up libjsoup-java (1.15.3-1) ... Setting up at-spi2-common (2.58.1-1) ... Setting up libtiff6:amd64 (4.7.1-1) ... Setting up libxcb-randr0:amd64 (1.17.0-2+b1) ... Setting up dbus-session-bus-common (1.16.2-2) ... Setting up libuchardet0:amd64 (0.0.8-2) ... Setting up libassuan9:amd64 (3.0.2-2) ... Setting up libxml-commons-external-java (1.4.01-6) ... Setting up procps (2:4.0.4-9) ... Setting up libxbean-reflect-java (4.5-9) ... Setting up libnl-3-200:amd64 (3.11.0-2) ... Setting up libservlet-api-java (4.0.1-2) ... Setting up libplexus-xml-java (3.0.1-2) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libpsm2-2 (11.2.185-2.1) ... Setting up libopentest4j-java (1.2.0-4) ... Setting up openmpi-common (5.0.8-10) ... Setting up libtasn1-6:amd64 (4.20.0-2) ... Setting up libx11-6:amd64 (2:1.8.12-1) ... Setting up ncbi-vdb-data (3.2.1+dfsg-2) ... Setting up libthai-data (0.1.29-2) ... Setting up netbase (6.5) ... Setting up libngtcp2-16:amd64 (1.16.0-1) ... Setting up sgml-base (1.31+nmu1) ... Setting up libsub-quote-perl (2.006009-1) ... Setting up libclass-xsaccessor-perl (1.19-4+b5) ... Setting up cmake-data (4.1.1+really3.31.6-2) ... Setting up librhash1:amd64 (1.4.6-1) ... Setting up libkrb5-3:amd64 (1.21.3-5) ... Setting up libevent-core-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up libwayland-egl1:amd64 (1.24.0-2+b1) ... Setting up libmbedcrypto16:amd64 (3.6.4-2) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libhttpcore-java (4.4.16-1) ... Setting up libjs-jquery (3.7.1+dfsg+~3.5.33-1) ... Setting up libprotoc32t64:amd64 (3.21.12-14) ... Setting up libxerces2-java (2.12.2-1) ... Setting up libfile-dirlist-perl (0.05-3) ... Setting up dbus-system-bus-common (1.16.2-2) ... Creating group 'messagebus' with GID 997. Creating user 'messagebus' (System Message Bus) with UID 997 and GID 997. Setting up libfido2-1:amd64 (1.16.0-2) ... Setting up libfile-homedir-perl (1.006-2) ... Setting up libtasn1-6-dev:amd64 (4.20.0-2) ... Setting up openssl (3.5.4-1) ... Setting up libcatch2-dev (3.7.1-0.6) ... Setting up libdrm-common (2.4.127-1) ... Setting up libcdi-api-java (1.2-4) ... Setting up libsnappy-jni (1.1.10.8-1) ... Setting up libezmorph-java (1.0.6-4) ... Setting up libxcomposite1:amd64 (1:0.4.6-1) ... Setting up libarchive13t64:amd64 (3.7.4-4+b1) ... Setting up readline-common (8.3-3) ... Setting up libldap2:amd64 (2.6.10+dfsg-1) ... Setting up liburi-perl (5.30-1) ... Setting up dbus-bin (1.16.2-2) ... Setting up libbrotli-dev:amd64 (1.1.0-2+b7) ... Setting up libfmt10:amd64 (10.1.1+ds1-4) ... Setting up chrpath (0.18-1) ... Setting up libfile-touch-perl (0.12-2) ... Setting up dctrl-tools (2.24-3+b1) ... Setting up libbz2-dev:amd64 (1.0.8-6) ... Setting up libxkbcommon0:amd64 (1.7.0-2.1) ... Setting up libwayland-client0:amd64 (1.24.0-2+b1) ... Setting up libnet-ssleay-perl:amd64 (1.94-3) ... Setting up automake (1:1.18.1-2) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libksba8:amd64 (1.6.7-2+b1) ... Setting up pinentry-curses (1.3.2-3) ... Setting up libdom4j-java (2.1.4-1) ... Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up libxcb-dri3-0:amd64 (1.17.0-2+b1) ... Setting up libwagon-provider-api-java (3.5.3-2) ... Setting up libllvm19:amd64 (1:19.1.7-7) ... Setting up libx11-xcb1:amd64 (2:1.8.12-1) ... Setting up libhttp-date-perl (6.06-1) ... Setting up gettext (0.23.1-2+b1) ... Setting up libjetty9-java (9.4.57-1.1) ... Setting up libxdamage1:amd64 (1:1.1.6-1+b2) ... Setting up libgmp-dev:amd64 (2:6.3.0+dfsg-5) ... Setting up libfile-listing-perl (6.16-1) ... Setting up libplexus-languages-java (1.1.1-3) ... Setting up protobuf-compiler (3.21.12-14) ... Setting up nettle-dev:amd64 (3.10.2-1) ... Setting up libxrender1:amd64 (1:0.9.12-1) ... Setting up jarwrapper (0.81) ... Setting up libtool (2.5.4-7) ... Setting up libevent-pthreads-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up fontconfig-config (2.15.0-2.4) ... Setting up libmaven-parent-java (43-2) ... Setting up libevent-openssl-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:amd64 (0.8-17) ... Setting up libcommons-logging-java (1.3.0-2) ... Setting up libxext6:amd64 (2:1.3.4-1+b3) ... Setting up libnet-http-perl (6.24-1) ... Setting up libsisu-inject-java (0.3.5-1) ... Setting up libidn2-0:amd64 (2.3.8-4) ... Setting up libnss3:amd64 (2:3.117-1) ... Setting up dbus-daemon (1.16.2-2) ... Setting up libngtcp2-dev:amd64 (1.16.0-1) ... Setting up libxom-java (1.3.9-1) ... Setting up libdevel-callchecker-perl:amd64 (0.009-2) ... Setting up libgfortran-15-dev:amd64 (15.2.0-7) ... Setting up libcommons-lang-java (2.6-12) ... Setting up libplexus-cipher-java (2.0-1) ... Setting up pkgconf:amd64 (1.8.1-4) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libnuma-dev:amd64 (2.0.19-1) ... Setting up libnl-route-3-200:amd64 (3.11.0-2) ... Setting up libxnvctrl0:amd64 (535.171.04-1+b2) ... Setting up libprotobuf-dev:amd64 (3.21.12-14) ... Setting up dh-autoreconf (21) ... Setting up patchutils (0.4.3-1) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up libltdl-dev:amd64 (2.5.4-7) ... Setting up libthai0:amd64 (0.1.29-2+b1) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libsisu-plexus-java (0.3.5-1) ... Setting up libglib2.0-0t64:amd64 (2.86.1-1) ... Setting up libmbedx509-7:amd64 (3.6.4-2) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libllvm17t64:amd64 (1:17.0.6-22+b3) ... Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libxfixes3:amd64 (1:6.0.0-2+b4) ... Setting up testng (6.9.12-4) ... Setting up libldap-dev:amd64 (2.6.10+dfsg-1) ... Setting up dbus (1.16.2-2) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b3) ... Setting up libp11-kit0:amd64 (0.25.9-2) ... Setting up libxinerama1:amd64 (2:1.1.4-3+b4) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ... Setting up libxrandr2:amd64 (2:1.5.4-1+b3) ... Setting up libcommons-collections4-java (4.4-2) ... Setting up libfmt-dev:amd64 (10.1.1+ds1-4) ... Setting up libspdlog1.15:amd64 (1:1.15.3+ds-1) ... Setting up libssh2-1-dev:amd64 (1.11.1-1) ... Setting up libidn2-dev:amd64 (2.3.8-4) ... Setting up libngtcp2-crypto-ossl0:amd64 (1.16.0-1) ... Setting up libcommons-lang3-java (3.17.0-2) ... Setting up libevent-extra-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up libmbedtls21:amd64 (3.6.4-2) ... Setting up libngtcp2-crypto-ossl-dev:amd64 (1.16.0-1) ... Setting up libreadline8t64:amd64 (8.3-3) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libdrm2:amd64 (2.4.127-1) ... Setting up libnl-3-dev:amd64 (3.11.0-2) ... Setting up groff-base (1.23.0-9) ... Setting up libwayland-cursor0:amd64 (1.24.0-2+b1) ... Setting up libhtml-parser-perl:amd64 (3.83-1+b2) ... Setting up gpgconf (2.4.8-4) ... Setting up libpam-systemd:amd64 (258.1-2) ... Setting up libcommons-beanutils-java (1.10.1-1.1) ... Setting up libplexus-sec-dispatcher-java (2.0-3) ... Setting up libharfbuzz0b:amd64 (12.1.0-1) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.44.4+dfsg-1) ... Setting up libhwloc-dev:amd64 (2.12.2-1) ... Setting up libsnappy-java (1.1.10.8-1) ... Setting up libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b2) ... Setting up libfontconfig1:amd64 (2.15.0-2.4) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up libwagon-file-java (3.5.3-2) ... Setting up libxml2-utils (2.14.6+dfsg-0.1) ... Setting up libcommons-codec-java (1.18.0-1) ... Setting up libpython3.13-stdlib:amd64 (3.13.9-1) ... Setting up libavahi-client3:amd64 (0.8-17) ... Setting up libio-socket-ssl-perl (2.095-1) ... Setting up gpg (2.4.8-4) ... Created symlink '/etc/systemd/user/sockets.target.wants/keyboxd.socket' -> '/usr/lib/systemd/user/keyboxd.socket'. Setting up libp11-kit-dev:amd64 (0.25.9-2) ... Setting up libpython3-stdlib:amd64 (3.13.7-1) ... Setting up libhttp-message-perl (7.01-1) ... Setting up libdrm-amdgpu1:amd64 (2.4.127-1) ... Setting up libgnutls30t64:amd64 (3.8.10-3) ... Setting up libgnutls-openssl27t64:amd64 (3.8.10-3) ... Setting up gtk-update-icon-cache (4.20.2+ds-2) ... Setting up gfortran-15-x86-64-linux-gnu (15.2.0-7) ... Setting up libnghttp2-dev:amd64 (1.64.0-1.1+b1) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up velocity (1.7-7) ... Setting up libibverbs1:amd64 (56.1-1+b1) ... Setting up fontconfig (2.15.0-2.4) ... Regenerating fonts cache... done. Setting up gpg-agent (2.4.8-4) ... Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket' -> '/usr/lib/systemd/user/gpg-agent-browser.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket' -> '/usr/lib/systemd/user/gpg-agent-extra.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket' -> '/usr/lib/systemd/user/gpg-agent-ssh.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent.socket' -> '/usr/lib/systemd/user/gpg-agent.socket'. Setting up libatk1.0-0t64:amd64 (2.58.1-1) ... Setting up openjdk-21-jre-headless:amd64 (21.0.9+10-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libxi6:amd64 (2:1.8.2-1) ... Setting up ibverbs-providers:amd64 (56.1-1+b1) ... Setting up libhttp-cookies-perl (6.11-1) ... Setting up python3.13 (3.13.9-1) ... Setting up libcommons-io-java (2.19.0-1) ... Setting up libcommons-digester-java (1.8.1-7) ... Setting up openssh-client (1:10.2p1-2) ... Created symlink '/etc/systemd/user/sockets.target.wants/ssh-agent.socket' -> '/usr/lib/systemd/user/ssh-agent.socket'. Setting up libxtst6:amd64 (2:1.2.5-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libxcursor1:amd64 (1:1.2.3-1) ... Setting up libparams-classify-perl:amd64 (0.015-2+b4) ... Setting up libpango-1.0-0:amd64 (1.56.3-2) ... Setting up libdrm-intel1:amd64 (2.4.127-1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libncbi-vdb3:amd64 (3.2.1+dfsg-2) ... Setting up libcloudproviders0:amd64 (0.3.6-3) ... Setting up python3 (3.13.7-1) ... Setting up libhwloc-plugins:amd64 (2.12.2-1) ... Setting up libspdlog-dev:amd64 (1:1.15.3+ds-1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'. Setting up libcairo2:amd64 (1.18.4-1+b1) ... Setting up libcolord2:amd64 (1.4.8-2) ... Setting up libpsl-dev:amd64 (0.21.2-1.1+b1) ... Setting up libdconf1:amd64 (0.49.0-1) ... Setting up libnl-route-3-dev:amd64 (3.11.0-2) ... Setting up libmaven-filtering-java (3.4.0-1) ... Setting up dbus-user-session (1.16.2-2) ... Setting up libmaven-resolver-java (1.9.22-1) ... Setting up libgnutls-dane0t64:amd64 (3.8.10-3) ... Setting up adwaita-icon-theme (49.0-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libmodule-runtime-perl (0.018-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libgssrpc4t64:amd64 (1.21.3-5) ... Setting up libatspi2.0-0t64:amd64 (2.58.1-1) ... Setting up libevent-dev (2.1.12-stable-10+b1) ... Setting up libpmix2t64:amd64 (6.0.0+really5.0.8-1) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up libmaven-common-artifact-filters-java (3.4.0-1) ... Setting up librdmacm1t64:amd64 (56.1-1+b1) ... Setting up liblightcouch-java (0.2.0-1) ... Setting up libwagon-http-java (3.5.3-2) ... Setting up libcairo-gobject2:amd64 (1.18.4-1+b1) ... Setting up libmaven-shared-utils-java (3.4.2-1) ... Setting up libpangoft2-1.0-0:amd64 (1.56.3-2) ... Setting up libmaven-resources-plugin-java (3.3.1-1) ... Setting up libcups2t64:amd64 (2.4.14-1) ... Setting up libhsakmt1:amd64 (6.2.4+ds-1) ... Setting up gfortran-15 (15.2.0-7) ... Setting up libpangocairo-1.0-0:amd64 (1.56.3-2) ... Setting up libkadm5clnt-mit12:amd64 (1.21.3-5) ... Setting up libgnutls28-dev:amd64 (3.8.10-3) ... Setting up libncbi-ngs3:amd64 (3.2.1+dfsg-5) ... Setting up libatk-bridge2.0-0t64:amd64 (2.58.1-1) ... Setting up libfabric1:amd64 (2.1.0-1.1) ... Setting up mesa-libgallium:amd64 (25.2.5-1) ... Setting up libngs-jni:amd64 (3.2.1+dfsg-5) ... Setting up libplexus-io-java (3.3.1-2) ... Setting up libcommons-compress-java (1.27.1-2) ... Setting up libcurl4t64:amd64 (8.17.0~rc2-1) ... Setting up libkdb5-10t64:amd64 (1.21.3-5) ... Setting up libcommons-validator-java (1:1.9.0-1) ... Setting up libgbm1:amd64 (25.2.5-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up liblog4j2-java (2.19.0-2) ... Setting up libcurlpp0t64:amd64 (0.8.1-6) ... Setting up libgl1-mesa-dri:amd64 (25.2.5-1) ... Setting up debhelper (13.28) ... Setting up dconf-service (0.49.0-1) ... Setting up libibverbs-dev:amd64 (56.1-1+b1) ... Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libmaven-clean-plugin-java (3.2.0-2) ... Setting up libhsa-runtime64-1:amd64 (6.1.2-3) ... Setting up libkadm5srv-mit12:amd64 (1.21.3-5) ... Setting up cmake (4.1.1+really3.31.6-2) ... Setting up libplexus-archiver-java (4.6.1-1) ... Setting up libngs-java:amd64 (3.2.1+dfsg-5) ... Setting up krb5-multidev:amd64 (1.21.3-5) ... Setting up libglx-mesa0:amd64 (25.2.5-1) ... Setting up libglx0:amd64 (1.7.0-1+b2) ... Setting up dconf-gsettings-backend:amd64 (0.49.0-1) ... Setting up libmaven-archiver-java (3.6.2-1) ... Setting up libkrb5-dev:amd64 (1.21.3-5) ... Setting up libgl1:amd64 (1.7.0-1+b2) ... Setting up libamdhip64-5:amd64 (5.7.1-7) ... Setting up libcurl4-openssl-dev:amd64 (8.17.0~rc2-1) ... Setting up libcurlpp-dev:amd64 (0.8.1-6) ... Setting up libgtk-3-common (3.24.51-1) ... Setting up libucx0:amd64 (1.19.0+ds-1) ... Setting up libgtk-3-0t64:amd64 (3.24.51-1) ... Setting up libopenmpi40:amd64 (5.0.8-10+b1) ... Setting up openmpi-bin (5.0.8-10+b1) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/mpiexec.1.gz because associated file /usr/share/man/man1/mpiexec.openmpi.1.gz (of link group mpirun) doesn't exist update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up libopenmpi-dev:amd64 (5.0.8-10+b1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openmpi/include to provide /usr/include/x86_64-linux-gnu/mpi (mpi-x86_64-linux-gnu) in auto mode Setting up mpi-default-dev (1.19) ... Setting up liberror-prone-java (2.18.0-1) ... Setting up libwww-perl (6.81-1) ... Setting up devscripts (2.25.22) ... Setting up libguava-java (32.0.1-1) ... Setting up javahelper (0.81) ... Setting up libprotobuf-java (3.21.12-14) ... Setting up libplexus-container-default-java (2.1.1-1) ... Setting up liblwp-protocol-https-perl (6.14-1) ... Setting up libguice-java (5.1.0-1) ... Setting up libplexus-i18n-java (1.0-beta-10-6) ... Setting up libplexus-container-default1.5-java (2.1.1-1) ... Setting up libplexus-velocity-java (1.2-4) ... Setting up libmaven3-core-java (3.9.9-1) ... Setting up libmaven-shared-incremental-java (1.1-6) ... Setting up libmaven-shared-io-java (3.0.0-4) ... Setting up libplexus-bsh-factory-java (1.0~alpha7-5) ... Setting up libplexus-compiler-java (2.13.0-1) ... Setting up libmaven-compiler-plugin-java (3.13.0-1) ... Setting up libmaven-file-management-java (3.0.0-2) ... Setting up libbuild-helper-maven-plugin-java (3.3.0-1) ... Setting up libmaven-jar-plugin-java (3.3.0-2) ... Setting up libcommons-text-java (1.13.1-1) ... Setting up libdoxia-core-java (2.0.0-1) ... Setting up libdoxia-java (2.0.0-1) ... Setting up libmaven-reporting-api-java (4.0.0-1) ... Setting up libmaven-reporting-exec-java (2.0.0-1) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for systemd (258.1-2) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_BR_Root_CA_2_2023.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_2_2023.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:FIRMAPROFESIONAL_CA_ROOT-A_WEB.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_Root_CA12.pem Adding debian:SecureSign_Root_CA14.pem Adding debian:SecureSign_Root_CA15.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_CYBER_Root_CA.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:Telekom_Security_TLS_ECC_Root_2020.pem Adding debian:Telekom_Security_TLS_RSA_Root_2023.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up maven (3.9.9-1) ... update-alternatives: using /usr/share/maven/bin/mvn to provide /usr/bin/mvn (mvn) in auto mode Setting up openjdk-21-jre:amd64 (21.0.9+10-1) ... Setting up ant (1.10.15-1) ... Setting up junit4 (4.13.2-5) ... Setting up openjdk-21-jdk-headless:amd64 (21.0.9+10-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jwebserver to provide /usr/bin/jwebserver (jwebserver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre-headless (2:1.21-76) ... Setting up maven-repo-helper (1.12) ... Setting up default-jre (2:1.21-76) ... Setting up libmaven-antrun-plugin-java (3.1.0-1) ... Setting up libplexus-ant-factory-java (1.0~alpha2.1-5) ... Setting up openjdk-21-jdk:amd64 (21.0.9+10-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up default-jdk-headless (2:1.21-76) ... Setting up junit5 (5.10.3-1) ... Setting up libjson-java (3.2.0+dfsg-2) ... Setting up libhtsjdk-java (4.1.3+dfsg-2) ... Setting up libmaven-plugin-tools-java (3.10.2-2) ... Setting up default-jdk (2:1.21-76) ... Processing triggers for sgml-base (1.31+nmu1) ... Setting up libvelocity-tools-java (2.0-9) ... Setting up libdoxia-sitetools-java (2.0.0-1) ... Setting up libmaven-site-plugin-java (3.21.0-1) ... Setting up libmaven-reporting-impl-java (4.0.0-1) ... Setting up libsurefire-java (2.22.3-4) ... Setting up maven-debian-helper (2.6.9) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20240118) ... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/genomicsdb-1.5.5/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../genomicsdb_1.5.5-2_source.changes dpkg-buildpackage: info: source package genomicsdb dpkg-buildpackage: info: source version 1.5.5-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Pierre Gruet dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=cmake --with javahelper debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Removing the files we provided manually for the build of the component if [ -e genomicsdb-htslib/CMakeLists.txt ]; then rm genomicsdb-htslib/CMakeLists.txt; fi if [ -e genomicsdb-htslib/config.h ]; then rm genomicsdb-htslib/config.h; fi if [ -e genomicsdb-htslib/version.h ]; then rm genomicsdb-htslib/version.h; fi dh_auto_clean dh_auto_clean --buildsystem=maven bash -c "for dir in \$(find . -name target -type d); do if [ -f \$(echo \$dir | sed -e s/target\$/pom.xml/) ]; then rm -Rf \$dir; fi done" mh_unpatchpoms -plibgenomicsdb-java # Removing the debian/maven.properties file we setup during configure step. if [ -e debian/maven.properties ]; then rm debian/maven.properties; fi # Removing the patched pom.xml file. if [ -e pom.xml.old ]; then mv pom.xml.old pom.xml; fi make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' dh_autoreconf_clean -O--buildsystem=cmake jh_clean -O--buildsystem=cmake Duplicate specification "u=s" for option "u" dh_clean -O--buildsystem=cmake debian/rules binary dh binary --buildsystem=cmake --with javahelper dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake debian/rules override_dh_auto_configure-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Preparing the build of the htslib component. cp debian/htslibComponentFiles/* genomicsdb-htslib/ echo '#define HTS_VERSION_TEXT ""' > genomicsdb-htslib/version.h # Configuring the C++ part using CMake. dh_auto_configure -- \ -DBUILD_JAVA:BOOL=False \ -DCMAKE_INSTALL_PREFIX:PATH=/usr \ -DJAVA_HOME:PATH=/usr/lib/jvm/default-java \ -DPROTOBUF_ROOT_DIR:PATH=/usr \ -DCMAKE_LIBRARY_ARCHITECTURE:STRING=x86_64-linux-gnu cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DBUILD_JAVA:BOOL=False -DCMAKE_INSTALL_PREFIX:PATH=/usr -DJAVA_HOME:PATH=/usr/lib/jvm/default-java -DPROTOBUF_ROOT_DIR:PATH=/usr -DCMAKE_LIBRARY_ARCHITECTURE:STRING=x86_64-linux-gnu .. -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.17.0-rc2") -- Looking for lzma_auto_decoder in /usr/lib/x86_64-linux-gnu/liblzma.so -- Looking for lzma_auto_decoder in /usr/lib/x86_64-linux-gnu/liblzma.so - found -- Looking for lzma_easy_encoder in /usr/lib/x86_64-linux-gnu/liblzma.so -- Looking for lzma_easy_encoder in /usr/lib/x86_64-linux-gnu/liblzma.so - found -- Looking for lzma_lzma_preset in /usr/lib/x86_64-linux-gnu/liblzma.so -- Looking for lzma_lzma_preset in /usr/lib/x86_64-linux-gnu/liblzma.so - found -- Found LibLZMA: /usr/lib/x86_64-linux-gnu/liblzma.so (found version "5.8.1") CMake Deprecation Warning at genomicsdb-tiledb/CMakeLists.txt:29 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.1") -- Found libuuid: /usr/include -- Found OpenSSL: /usr/lib/x86_64-linux-gnu/libcrypto.so (found version "3.5.4") -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.17.0-rc2") -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- The TileDB library is compiled with verbosity. -- Found Catch2: /catch2/catch_all.hpp Version=3 -- GenomicsDB version=1.5.4 full_version=1.5.4-SNAPSHOT- -- CMAKE_BUILD_TYPE=None -- Performing Test test_cpp_2011 -- Performing Test test_cpp_2011 - Success -- Performing Test test_stack_protector_strong -- Performing Test test_stack_protector_strong - Success -- Found MPI_C: /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI_CXX: /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI: TRUE (found version "3.1") -- Performing Test OPENMPV4_FOUND -- Performing Test OPENMPV4_FOUND - Success -- Performing Test STRING_VIEW_FOUND -- Performing Test STRING_VIEW_FOUND - Success -- string_view found -- RapidJSON found. Headers: /usr/include -- Found Spdlog: /usr/include -- Try finding Protobuf Library -- Could not find libcsv headers and/or libraries (missing: LIBCSV_LIBRARY LIBCSV_INCLUDE_DIR) -- Could not find safestring headers and/or libraries (missing: SAFESTRINGLIB_INCLUDE_DIR SAFESTRINGLIB_LIBRARY) CMake Warning (dev) at src/test/cpp/CMakeLists.txt:85 (add_custom_command): The following keywords are not supported when using add_custom_command(TARGET): DEPENDS. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at src/test/cpp/CMakeLists.txt:85 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Configuring done (3.7s) -- Generating done (0.3s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' debian/rules override_dh_auto_configure-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Preparing the build of the htslib component. cp debian/htslibComponentFiles/* genomicsdb-htslib/ echo '#define HTS_VERSION_TEXT ""' > genomicsdb-htslib/version.h # Configuring the C++ part using CMake. dh_auto_configure -- \ -DBUILD_JAVA:BOOL=False \ -DCMAKE_INSTALL_PREFIX:PATH=/usr \ -DJAVA_HOME:PATH=/usr/lib/jvm/default-java \ -DPROTOBUF_ROOT_DIR:PATH=/usr \ -DCMAKE_LIBRARY_ARCHITECTURE:STRING=x86_64-linux-gnu cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DBUILD_JAVA:BOOL=False -DCMAKE_INSTALL_PREFIX:PATH=/usr -DJAVA_HOME:PATH=/usr/lib/jvm/default-java -DPROTOBUF_ROOT_DIR:PATH=/usr -DCMAKE_LIBRARY_ARCHITECTURE:STRING=x86_64-linux-gnu .. -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.17.0-rc2") CMake Deprecation Warning at genomicsdb-tiledb/CMakeLists.txt:29 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.17.0-rc2") -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- The TileDB library is compiled with verbosity. -- Found Catch2: /catch2/catch_all.hpp Version=3 -- GenomicsDB version=1.5.4 full_version=1.5.4-SNAPSHOT- -- CMAKE_BUILD_TYPE=None -- string_view found -- RapidJSON found. Headers: /usr/include -- Try finding Protobuf Library -- Could not find libcsv headers and/or libraries (missing: LIBCSV_LIBRARY LIBCSV_INCLUDE_DIR) -- Could not find safestring headers and/or libraries (missing: SAFESTRINGLIB_INCLUDE_DIR SAFESTRINGLIB_LIBRARY) CMake Warning (dev) at src/test/cpp/CMakeLists.txt:85 (add_custom_command): The following keywords are not supported when using add_custom_command(TARGET): DEPENDS. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at src/test/cpp/CMakeLists.txt:85 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Configuring done (1.5s) -- Generating done (0.9s) -- Build files have been written to: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu # Configuring the Java part using Maven. # First we put the arch triplet in d/maven.properties for the tests. echo "build.triplet=x86_64-linux-gnu" > debian/maven.properties mv pom.xml pom.xml.old sed 's/\${genomicsdb\.version}/1.5.5/; s,\${protoc\.filepath},/usr/bin/protoc,' pom.xml.old > pom.xml dh_auto_configure --buildsystem=maven skip faking of existing gnu-getopt:getopt::debian mh_patchpoms -plibgenomicsdb-java --debian-build --keep-pom-version --maven-repo=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_linkjars -O--buildsystem=cmake Duplicate specification "unlink|u" for option "u" debian/rules override_dh_auto_build-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_build cd obj-x86_64-linux-gnu && make -j40 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/depend make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/depend make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'CMakeFiles/protobuf_ep.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 0%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o [ 0%] Built target protobuf_ep [ 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/array/array_read_state.cc.o [ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o [ 2%] 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_sorted_write_state.cc.o [ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o [ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o [ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o [ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o [ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/knetfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/knetfile.c [ 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/hfile_libcurl.c.o [ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_schema.cc make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/depend [ 5%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o -MF CMakeFiles/genomicsdb-hts.dir/kstring.c.o.d -o CMakeFiles/genomicsdb-hts.dir/kstring.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/kstring.c [ 5%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_read_state.cc [ 7%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o [ 7%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o [ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o [ 7%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -MF CMakeFiles/genomicsdb-hts.dir/bgzf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/bgzf.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_sorted_write_state.cc [ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o [ 8%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/resources /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/faidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/faidx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/faidx.c [ 9%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_iterator.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o -MF CMakeFiles/genomicsdb-hts.dir/header.c.o.d -o CMakeFiles/genomicsdb-hts.dir/header.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/header.c [ 10%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_sorted_read_state.cc [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o [ 10%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.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-1.5.5/genomicsdb-tiledb/core/src/array/array.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o -MF CMakeFiles/genomicsdb-hts.dir/kfunc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/kfunc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/kfunc.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_net.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_blosc.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o -MF CMakeFiles/genomicsdb-hts.dir/errmod.c.o.d -o CMakeFiles/genomicsdb-hts.dir/errmod.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/errmod.c [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/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-1.5.5/genomicsdb-htslib/bcf_sr_sort.c [ 11%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o [ 11%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o -MF CMakeFiles/genomicsdb-hts.dir/hts.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hts.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hts.c [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/md5.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o -MF CMakeFiles/genomicsdb-hts.dir/multipart.c.o.d -o CMakeFiles/genomicsdb-hts.dir/multipart.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/multipart.c [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o -MF CMakeFiles/genomicsdb-hts.dir/probaln.c.o.d -o CMakeFiles/genomicsdb-hts.dir/probaln.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/probaln.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter_bit_shuffle.cc [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o -MF CMakeFiles/genomicsdb-hts.dir/realn.c.o.d -o CMakeFiles/genomicsdb-hts.dir/realn.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/realn.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter_delta_encode.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_gzip.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_lz4.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o -MF CMakeFiles/genomicsdb-hts.dir/region.c.o.d -o CMakeFiles/genomicsdb-hts.dir/region.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/region.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_rle.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/regidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/regidx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/regidx.c [ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -MF CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o.d -o CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/synced_bcf_reader.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o -MF CMakeFiles/genomicsdb-hts.dir/sam.c.o.d -o CMakeFiles/genomicsdb-hts.dir/sam.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/sam.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_zstd.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle/bitshuffle_core.c make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 12%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle/iochain.c [ 12%] Generating source/header files from .proto files cd /build/reproducible-path/genomicsdb-1.5.5/src/resources && /usr/bin/protoc --cpp_out=/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources genomicsdb_coordinates.proto genomicsdb_callsets_mapping.proto genomicsdb_export_config.proto genomicsdb_import_config.proto genomicsdb_vid_mapping.proto /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c: In function 'libcurl_open': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c:1335:9: warning: 'CURLINFO_CONTENT_LENGTH_DOWNLOAD' is deprecated: since 7.55.0. Use CURLINFO_CONTENT_LENGTH_DOWNLOAD_T [-Wdeprecated-declarations] 1335 | if (curl_easy_getinfo(fp->easy, CURLINFO_CONTENT_LENGTH_DOWNLOAD, | ^~ [ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o In file included from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c:47: /usr/include/x86_64-linux-gnu/curl/curl.h:2932:3: note: declared here 2932 | CURLINFO_CONTENT_LENGTH_DOWNLOAD | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o -MF CMakeFiles/genomicsdb-hts.dir/tbx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/tbx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/tbx.c [ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o [ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/expressions/expression.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf_sweep.c [ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/textutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/textutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/textutils.c [ 14%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -MF CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o.d -o CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/thread_pool.c [ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/book_keeping.cc [ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/fragment.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/read_state.cc [ 15%] Built target PROTOBUF_GENERATED_CXX_TARGET [ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf.c [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/write_state.cc make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/DependInfo.cmake "--color=" [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata.cc [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata_iterator.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcfutils.c [ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_codecs.c [ 17%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 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-I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/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 /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc [ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_decode.c [ 17%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations_columnar.cc [ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o [ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/error.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/hilbert_curve.cc [ 19%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o.d -o 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc [ 19%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_cell.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_storage_manager.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc [ 20%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o [ 20%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc [ 20%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_encode.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_external.c [ 21%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_index.c [ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/mem_utils.cc [ 21%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant.cc [ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_handler.cc [ 22%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_io.c [ 22%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_samtools.c [ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 23%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o [ 23%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc [ 23%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/progress_bar.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations_columnar.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc: In function 'int tiledb_array_set_schema(TileDB_ArraySchema*, const char*, const char**, int, int64_t, int, const int*, const int*, const int*, const int*, const int*, int, const char**, int, const void*, size_t, const void*, size_t, int, const int*)': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:409:22: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 409 | (int*) malloc((attribute_num)*sizeof(int)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/cstdlib:83, from /usr/include/c++/15/ext/string_conversions.h:45, from /usr/include/c++/15/bits/basic_string.h:4444, from /usr/include/c++/15/string:56, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api/tiledb.h:44, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:36: /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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:440:62: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 440 | tiledb_array_schema->offsets_compression_ = (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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:440:62: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 440 | tiledb_array_schema->offsets_compression_ = (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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:448:68: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 448 | tiledb_array_schema->offsets_compression_level_ = (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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:448:68: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 448 | tiledb_array_schema->offsets_compression_level_ = (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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:440:62: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 440 | tiledb_array_schema->offsets_compression_ = (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__ | ^~~~~~ [ 24%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc [ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_construct.h:61, from /usr/include/c++/15/bits/stl_tempbuf.h:61, from /usr/include/c++/15/memory:68, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/genomicsdb_importer.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_array_schema.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_cell.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_file_base.cc [ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_storage_manager.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:28: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/memory_measure.cc /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc: In function 'int tiledb_metadata_set_schema(TileDB_MetadataSchema*, const char*, const char**, int, int64_t, const int*, const int*, const int*, const int*)': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:1131:22: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1131 | (int*) malloc((attribute_num)*sizeof(int)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /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__ | ^~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/gt_remapper.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/gt_remapper_template_definition.h:25, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/histogram.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_handler.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_INFO_fields(const Variant&)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:622:37: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 622 | auto stringified = std::move(m_field_handlers[bcf_ht_type]->stringify_2D_vector(*(BCF_INFO_GET_FIELD_INFO_PTR(curr_tuple)))); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:622:37: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:643:34: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_deletions(Variant&)': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:1106:37: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc: In member function 'virtual void AlleleCountOperator::operate_on_columnar_cell(const GenomicsDBColumnarCell&, const VariantQueryConfig&, const VariantArraySchema&)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:984:36: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 984 | auto REF_ALT_pair = std::move(std::pair( | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 985 | std::string(REF_ptr, REF_length), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 986 | std::string(ALT_ptr+m_cell_ALT_offsets[ALT_idx], | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 987 | m_cell_ALT_offsets[ALT_idx+1]-m_cell_ALT_offsets[ALT_idx]-1))); //-1 to ignore delim char | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:984:36: note: remove 'std::move' call [ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/lut.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc [ 28%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_stats.c [ 28%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/mFILE.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/genomicsdb_importer.h:25, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/genomicsdb_importer.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 28%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/uri.cc [ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc [ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_sql.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc:27: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_algobase.h:65, from /usr/include/c++/15/bits/specfun.h:43, from /usr/include/c++/15/cmath:3913, from /usr/include/fmt/format.h:36, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:32: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_file_base.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_text_file.h:33, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:30: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/open_trace_file.c [ 30%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/pooled_alloc.c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc: In member function 'std::vector GenomicsDBMultiDVectorField::parse_and_store_numeric(const char*, size_t)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 436 | auto total_size_of_multi_d_data_vec = std::move(GenomicsDBMultiDVectorField::parse_and_store_numeric( | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 437 | m_rw_field_data, *m_field_info_ptr, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 438 | str, str_length)); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: note: remove 'std::move' call [ 30%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/utils.cc [ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o [ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_buffer.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/timer.cc [ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager.cc [ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_fs.cc [ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager_config.cc [ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/genomicsdb_logger.cc [ 31%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/rANS_static.c [ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc [ 33%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_posixfs.cc [ 33%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/string_alloc.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc:27: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/known_field_info.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf_adapter.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc [ 33%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4/lz4.c [ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf2binary.cc [ 34%] Building C object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cc -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/hfile_genomicsdb.c [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/htslib_fs_adapter.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/variant_query_config.cc [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:33: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/alleles_combiner.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/alleles_combiner_template_definition.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void VidMapper::parse_string_length_descriptor(const char*, const char*, size_t, FieldLengthDescriptor&, size_t)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:757:47: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 757 | auto length_value_upper_case_str = std::move(std::string(length_value_str)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:757:47: note: remove 'std::move' call [ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/pb_config.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void FileBasedVidMapper::common_constructor_initialization(const rapidjson::Value&)': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:1269:40: note: remove 'std::move' call [ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/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-1.5.5/src/main/cpp/src/api/annotation_service.cc [ 37%] Linking C shared library libgenomicsdb-hts.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdb-hts.dir/link.txt --verbose=1 /usr/bin/cc -fPIC -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--dependency-file=CMakeFiles/genomicsdb-hts.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libgenomicsdb-hts.so -o libgenomicsdb-hts.so "CMakeFiles/genomicsdb-hts.dir/kfunc.c.o" "CMakeFiles/genomicsdb-hts.dir/knetfile.c.o" "CMakeFiles/genomicsdb-hts.dir/kstring.c.o" "CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o" "CMakeFiles/genomicsdb-hts.dir/bgzf.c.o" "CMakeFiles/genomicsdb-hts.dir/errmod.c.o" "CMakeFiles/genomicsdb-hts.dir/faidx.c.o" "CMakeFiles/genomicsdb-hts.dir/header.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o" "CMakeFiles/genomicsdb-hts.dir/hts.c.o" "CMakeFiles/genomicsdb-hts.dir/hts_os.c.o" "CMakeFiles/genomicsdb-hts.dir/md5.c.o" "CMakeFiles/genomicsdb-hts.dir/multipart.c.o" "CMakeFiles/genomicsdb-hts.dir/probaln.c.o" "CMakeFiles/genomicsdb-hts.dir/realn.c.o" "CMakeFiles/genomicsdb-hts.dir/regidx.c.o" "CMakeFiles/genomicsdb-hts.dir/region.c.o" "CMakeFiles/genomicsdb-hts.dir/sam.c.o" "CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o" "CMakeFiles/genomicsdb-hts.dir/tbx.c.o" "CMakeFiles/genomicsdb-hts.dir/textutils.c.o" "CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf.c.o" "CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o" /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 37%] Built target genomicsdb-hts [ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/variant_query_config.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_algobase.h:65, from /usr/include/c++/15/algorithm:62, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/variant_query_config.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc: In member function 'const bool GenomicsDBConfigBase::has_array_name(int) const': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc:101:53: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'const int' [-Wsign-compare] 101 | (!m_single_array_name && m_array_names.size() > rank)) { | ~~~~~~~~~~~~~~~~~~~~~^~~~~~ [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_field.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf2binary.cc:29: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/vcf2binary.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf2binary.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_plink.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc: In member function 'rapidjson::Document GenomicsDBConfigBase::read_from_file(const std::string&, int)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc:193:43: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 193 | rapidjson::Document json_doc = std::move(parse_json_file(filename)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc:193:43: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc: In member function 'void GenomicsDBImportConfig::read_from_file(const std::string&, int)': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/src/main/cpp/src/config/json_config.cc:704:43: note: remove 'std::move' call [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_utils.cc [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_json_processor.cc [ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_coordinates.pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:46: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb_exception.h:37, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb.h:37, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:34: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_callsets_mapping.pb.cc [ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_export_config.pb.cc [ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_import_config.pb.cc [ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_vid_mapping.pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_plink.cc:40: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb_exception.h:37, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb.h:37, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb_plink.h:35, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_plink.cc:34: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 40%] Linking CXX static library libgenomicsdb-tiledb.a cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -P CMakeFiles/tiledb_static.dir/cmake_clean_target.cmake [ 41%] 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CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 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 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CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o 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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 41%] 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 make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -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 -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_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -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 -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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/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 [ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o [ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o [ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -MF CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o.d -o CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_array_schema.cc [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -MF CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d -o CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -MF CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o.d -o CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -MF CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d -o CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -MF CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d -o CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_dense_array_api.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -MF CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d -o CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_tiledb_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -MF CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d -o CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/array/test_array_schema.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -MF CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o.d -o CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_sparse_array_api.cc [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -MF CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d -o CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -MF CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d -o CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_book_keeping.cc [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o [ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o [ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -MF CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d -o CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec_filter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -MF CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o.d -o CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_mem_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -MF CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o.d -o CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/expressions/test_filter_api.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -MF CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d -o CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/expressions/test_expressions.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -MF 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -MF CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o.d -o CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test 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-D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -MF CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o.d -o CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/storage_manager/test_posixfs.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 47%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -MF CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o.d -o CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/storage_manager/test_storage_buffer.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f 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/usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" [ 47%] Built target test_print_array_schema make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" [ 47%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -MF CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o.d -o CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_aio_read_dense.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 48%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -MF CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d -o CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_aio_write_dense.cc [ 48%] Linking CXX executable test_print_book_keeping cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_book_keeping.dir/link.txt --verbose=1 [ 49%] Linking CXX executable tiledb_array_3d cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_3d.dir/link.txt --verbose=1 [ 49%] Linking CXX executable tiledb_array_aio_read_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_read_dense.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 49%] Linking CXX executable tiledb_array_aio_write_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_write_dense.dir/link.txt --verbose=1 [ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -MF 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/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -MF CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d -o CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_create_dense.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -MF CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d -o CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_create_sparse.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_print_book_keeping.dir/link.d CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -o test_print_book_keeping ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 49%] Built target test_print_book_keeping make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -MF CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o.d -o CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_dense.cc [ 50%] Linking CXX executable tiledb_array_consolidate cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_consolidate.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_aio_read_dense.dir/link.d CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -o tiledb_array_aio_read_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 50%] Linking CXX executable tiledb_array_create_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_dense.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_aio_write_dense.dir/link.d CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -o tiledb_array_aio_write_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx [ 50%] 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/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_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse_filter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_3d.dir/link.d CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -o tiledb_array_3d ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 51%] Built target tiledb_array_3d [ 51%] 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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 52%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -MF CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d -o CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_sparse.cc [ 52%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -MF CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d -o CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_dense.cc [ 53%] Linking CXX executable tiledb_array_create_sparse cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_sparse.dir/link.txt --verbose=1 [ 53%] Linking CXX executable test_mem_utils cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mem_utils.dir/link.txt --verbose=1 [ 53%] Linking CXX executable tiledb_array_iterator_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_dense.dir/link.txt --verbose=1 [ 54%] Linking CXX executable tiledb_array_iterator_sparse_filter cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.txt --verbose=1 [ 54%] Linking CXX executable tiledb_array_iterator_sparse cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_consolidate.dir/link.d CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -o tiledb_array_consolidate ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_mem_utils.dir/link.d CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -o test_mem_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 54%] Built target test_mem_utils make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 54%] Built target tiledb_array_consolidate 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-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_2.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Built target tiledb_array_create_dense [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -MF CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_1.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" [ 55%] Linking CXX executable tiledb_array_parallel_consolidate_sparse cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -MF CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_mpi_io_dense.cc [ 55%] Linking CXX executable tiledb_array_parallel_consolidate_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.txt --verbose=1 In file included from /usr/include/c++/15/bits/basic_string.h:51, from /usr/include/c++/15/string:56: 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++/15/string_view:340:25, inlined from 'std::string_view get_segment(std::string_view, int)' at /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:819:20: /usr/include/c++/15/string_view:74:5: warning: 'pos' may be used uninitialized [-Wmaybe-uninitialized] 74 | if (__pos > __size) | ^~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc: In function 'std::string_view get_segment(std::string_view, int)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:806:26: note: 'pos' was declared here 806 | std::string::size_type pos; | ^~~ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_create_sparse.dir/link.d CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -o tiledb_array_create_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Built target tiledb_array_create_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_1.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_dense.dir/link.d CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -o tiledb_array_iterator_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Built target tiledb_array_iterator_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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_2.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -o tiledb_array_iterator_sparse_filter ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 56%] Built target tiledb_array_iterator_sparse_filter 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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse.dir/link.d CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -o tiledb_array_iterator_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 56%] Linking CXX executable tiledb_array_parallel_read_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 56%] Linking CXX executable tiledb_array_parallel_read_dense_1 [ 57%] Linking CXX executable tiledb_array_parallel_read_mpi_io_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.txt --verbose=1 [ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_1.cc [ 57%] Built target tiledb_array_iterator_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_2.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 57%] Built target tiledb_array_parallel_consolidate_sparse 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -o tiledb_array_parallel_consolidate_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" [ 57%] Built target tiledb_array_parallel_consolidate_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make 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CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -o tiledb_array_parallel_read_mpi_io_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_1.cc [ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_2.cc [ 57%] Built target tiledb_array_parallel_read_mpi_io_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -MF CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d -o CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_primitive.cc [ 58%] Linking CXX executable test_array_schema cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -MF CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o.d -o CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_1.cc [ 58%] Linking CXX executable tiledb_array_parallel_read_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" [ 59%] Linking CXX executable test_codec cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 59%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -MF CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d -o CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_2.cc [ 60%] Linking CXX executable tiledb_array_parallel_write_dense_1 [ 60%] Linking CXX executable tiledb_array_parallel_read_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.txt --verbose=1 [ 60%] Linking CXX executable tiledb_array_parallel_write_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -o tiledb_array_parallel_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -o tiledb_array_parallel_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 60%] Built target tiledb_array_parallel_read_dense_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 [ 60%] Built target tiledb_array_parallel_read_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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" [ 61%] Linking CXX executable tiledb_array_parallel_write_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" [ 61%] Linking CXX executable tiledb_array_parallel_write_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 61%] Linking CXX executable tiledb_array_primitive [ 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_1.cc [ 62%] Linking CXX executable tiledb_array_read_dense_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_1.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_primitive.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -MF CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d -o CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_3.cc [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_sorted.cc [ 63%] Linking CXX executable test_codec_filter cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec_filter.dir/link.txt --verbose=1 [ 63%] Linking CXX executable tiledb_array_read_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema.dir/link.d CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -o test_array_schema ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 63%] Built target test_array_schema make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -o tiledb_array_parallel_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_2.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_codec.dir/link.d CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -o test_codec ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 63%] Built target test_codec [ 63%] Built target tiledb_array_parallel_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/depend /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_codec_filter.dir/link.d CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -o test_codec_filter ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" make -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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 63%] Built target test_codec_filter make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_1.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 64%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_2.cc [ 64%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o [ 65%] Linking CXX executable tiledb_array_read_dense_sorted cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -MF CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_sorted.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_sorted.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -o tiledb_array_parallel_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.d CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -o tiledb_array_parallel_read_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 65%] Built target tiledb_array_parallel_write_dense_1 [ 65%] Linking CXX executable tiledb_array_read_dense_3 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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_3.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -o tiledb_array_parallel_write_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 65%] Built target tiledb_array_parallel_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build [ 65%] Built target tiledb_array_parallel_write_dense_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" [ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -MF CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d -o CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_2.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build [ 66%] Linking CXX executable tiledb_array_read_sparse_1 [ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_1.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -MF 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-I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -MF CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_1.cc [ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -MF CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_2.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -o tiledb_array_parallel_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 67%] Built target tiledb_array_parallel_write_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" [ 67%] Linking CXX executable test_filter_api cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_filter_api.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc [ 68%] Linking CXX executable tiledb_array_read_sparse_2 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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_1.dir/link.d CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -o tiledb_array_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_2.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 68%] Built target tiledb_array_read_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/depend /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_2.dir/link.d CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -o tiledb_array_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_2.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" [ 68%] Built target tiledb_array_read_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" [ 68%] Linking CXX executable tiledb_array_read_sparse_filter_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build [ 68%] Linking CXX executable tiledb_array_read_sparse_filter_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' [ 69%] 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_sorted.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -o tiledb_array_parallel_write_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx [ 70%] Linking CXX executable tiledb_array_read_sparse_sorted make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.txt --verbose=1 [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o [ 70%] Built target tiledb_array_parallel_write_sparse_2 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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_1.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_primitive.dir/link.d CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -o tiledb_array_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 70%] Built target tiledb_array_primitive make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_2.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 70%] Linking CXX executable tiledb_array_update_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_2.dir/link.txt --verbose=1 [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -MF CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_3.cc [ 70%] Linking CXX executable tiledb_array_update_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_3.dir/link.d CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -o tiledb_array_read_dense_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 [ 70%] Linking CXX executable tiledb_array_update_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_2.dir/link.txt --verbose=1 [ 70%] Linking CXX executable tiledb_array_update_dense_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_1.dir/link.txt --verbose=1 [ 70%] Built target tiledb_array_read_dense_3 [ 70%] 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/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -o tiledb_array_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -MF CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d -o CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_catching_errors.cc [ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -MF CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_4.cc [ 71%] Built target tiledb_array_read_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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o [ 72%] Linking CXX executable tiledb_array_write_dense_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_1.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -MF CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d -o CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_clear_delete_move.cc [ 72%] Linking CXX executable tiledb_array_write_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_2.dir/link.txt --verbose=1 [ 72%] Linking CXX executable tiledb_array_write_dense_sorted cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_sorted.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -o tiledb_array_read_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_filter_api.dir/link.d CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -o test_filter_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 72%] Linking CXX executable tiledb_catching_errors [ 72%] Linking CXX executable tiledb_array_write_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_2.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_catching_errors.dir/link.txt --verbose=1 [ 73%] Linking CXX executable tiledb_array_write_sparse_3 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_3.dir/link.txt --verbose=1 [ 74%] Linking CXX executable tiledb_array_write_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -o tiledb_array_read_sparse_filter_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -o tiledb_array_read_sparse_filter_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 74%] Built target tiledb_array_read_sparse_filter_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend [ 74%] Linking CXX executable tiledb_array_write_sparse_4 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_4.dir/link.txt --verbose=1 [ 74%] Built target tiledb_array_read_sparse_filter_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend [ 74%] Built target tiledb_array_read_sparse_2 [ 74%] Built target test_filter_api make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -o tiledb_array_read_sparse_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_dense_2.dir/link.d CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -o tiledb_array_update_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_sparse_2.dir/link.d CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -o tiledb_array_update_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_dense_1.dir/link.d CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -o tiledb_array_update_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 [ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o [ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -MF CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d -o CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_config.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -MF CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d -o CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_ls_workspaces.cc [ 74%] Built target tiledb_array_read_sparse_sorted make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend [ 74%] Built target tiledb_array_update_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_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 [ 74%] Built target tiledb_array_update_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" [ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -MF CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d -o CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_ls.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" [ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o [ 75%] Built target tiledb_array_update_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -MF CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d -o CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_delete.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend [ 75%] Built target tiledb_array_update_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -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-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o [ 78%] Linking CXX executable tiledb_clear_delete_move [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o [ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o [ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -MF CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o.d -o CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_update.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -MF CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d -o CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_create.cc [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -MF CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d -o CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_read.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_clear_delete_move.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -MF CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d -o CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_primitive.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -MF CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d -o CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_iterator.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -MF CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d -o CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_consolidate.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_1.dir/link.d CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -o tiledb_array_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Built target tiledb_array_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/depend /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_sorted.dir/link.d CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -o tiledb_array_write_dense_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_catching_errors.dir/link.d CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -o tiledb_catching_errors ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -o tiledb_array_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_2.dir/link.d CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -o tiledb_array_write_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_3.dir/link.d CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -o tiledb_array_write_sparse_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Built target tiledb_array_write_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build [ 78%] Linking CXX executable test_uri make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Linking CXX executable tiledb_ls_workspaces cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_uri.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls_workspaces.dir/link.txt --verbose=1 [ 78%] Linking CXX executable tiledb_metadata_create cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_create.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Linking CXX executable tiledb_config make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_config.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -MF CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o.d -o CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_workspace_group_create.cc [ 78%] Linking CXX executable tiledb_metadata_update [ 78%] Linking CXX executable tiledb_metadata_read [ 79%] Linking CXX executable tiledb_ls cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_update.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_read.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls.dir/link.txt --verbose=1 [ 80%] Linking CXX executable tiledb_metadata_consolidate [ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_consolidate.dir/link.txt --verbose=1 [ 80%] Linking CXX executable tiledb_metadata_iterator cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -MF CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d -o CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_write.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_iterator.dir/link.txt --verbose=1 In file included from /usr/include/string.h:548, from /usr/include/c++/15/cstring:48, 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-1.5.5/genomicsdb-tiledb/test/include/catch2/catch.h:39, from /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_4.dir/link.d CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -o tiledb_array_write_sparse_4 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 80%] Built target tiledb_array_write_sparse_4 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_clear_delete_move.dir/link.d CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -o tiledb_clear_delete_move ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 80%] Built target tiledb_catching_errors [ 80%] Built target tiledb_clear_delete_move [ 80%] Built target tiledb_array_write_sparse_1 [ 80%] Built target tiledb_array_write_dense_sorted [ 80%] Built target tiledb_array_write_dense_1 [ 80%] Built target tiledb_array_write_sparse_3 [ 81%] Linking CXX executable tiledb_metadata_primitive cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_primitive.dir/link.txt --verbose=1 [ 81%] Linking CXX executable tiledb_delete cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_delete.dir/link.txt --verbose=1 In file included from /usr/include/x86_64-linux-gnu/c++/15/bits/c++allocator.h:33, from /usr/include/c++/15/bits/allocator.h:46, from /usr/include/c++/15/string:45, 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-1.5.5/genomicsdb-tiledb/test/include/catch2/catch.h:39, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc:34: In member function 'void std::__new_allocator<_Tp>::deallocate(_Tp*, size_type) [with _Tp = std::__cxx11::basic_string]', inlined from 'static void std::allocator_traits >::deallocate(allocator_type&, pointer, size_type) [with _Tp = std::__cxx11::basic_string]' at /usr/include/c++/15/bits/alloc_traits.h:649:23, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_deallocate(pointer, std::size_t) [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:396:19, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_deallocate(pointer, std::size_t) [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:392:7, inlined from 'std::_Vector_base<_Tp, _Alloc>::~_Vector_base() [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:375:15, inlined from 'std::vector<_Tp, _Alloc>::~vector() [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:805:7, inlined from 'std::string readable_size(size_t, bool)' at /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark/tiledb_benchmark.h:496:3: /usr/include/c++/15/bits/new_allocator.h:172:66: warning: 'void operator delete(void*, std::size_t)' called on pointer '__result' with nonzero offset 32 [-Wfree-nonheap-object] 172 | _GLIBCXX_OPERATOR_DELETE(_GLIBCXX_SIZED_DEALLOC(__p, __n)); | ^ In file included from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc:36: /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark/tiledb_benchmark.h: In function 'std::string readable_size(size_t, bool)': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark/tiledb_benchmark.h:483:13: note: declared here 483 | std::string readable_size(size_t size, bool human_readable_sizes) { | ^~~~~~~~~~~~~ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_uri.dir/link.d CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -o test_uri ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 81%] Built target test_uri [ 82%] Linking CXX executable tiledb_workspace_group_create cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_workspace_group_create.dir/link.txt --verbose=1 [ 82%] Linking CXX executable tiledb_metadata_write cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_write.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls_workspaces.dir/link.d CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -o tiledb_ls_workspaces ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_config.dir/link.d CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -o tiledb_config ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_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-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_update.dir/link.d CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -o tiledb_metadata_update ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_ls_workspaces [ 82%] Built target tiledb_config [ 82%] Built target tiledb_metadata_create [ 82%] Built target tiledb_metadata_update /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_delete.dir/link.d CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -o tiledb_delete ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_delete /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls.dir/link.d CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -o tiledb_ls ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_consolidate.dir/link.d CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -o tiledb_metadata_consolidate ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_ls make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_read.dir/link.d CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -o tiledb_metadata_read ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_metadata_iterator [ 82%] Built target tiledb_metadata_consolidate [ 82%] Built target tiledb_metadata_read /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_primitive.dir/link.d CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -o tiledb_metadata_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_metadata_primitive /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_write.dir/link.d CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -o tiledb_metadata_write ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_metadata_write /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_workspace_group_create.dir/link.d CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -o tiledb_workspace_group_create ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_workspace_group_create [ 83%] Linking CXX executable test_array_iterator cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_iterator.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_iterator.dir/link.d CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -o test_array_iterator ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 83%] Built target test_array_iterator [ 83%] Linking CXX executable test_array_schema_api cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema_api.dir/link.txt --verbose=1 [ 84%] Linking CXX executable test_sparse_array_benchmark cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sparse_array_benchmark.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema_api.dir/link.d CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -o test_array_schema_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 84%] Built target test_array_schema_api [ 85%] Linking CXX 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-lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 85%] Linking CXX executable test_storage_buffer cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_storage_buffer.dir/link.txt --verbose=1 [ 85%] Built target test_sparse_array_benchmark /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_dense_array_api.dir/link.d CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -o test_dense_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so 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/usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 85%] Built target test_storage_buffer [ 86%] Linking CXX executable test_tiledb_utils cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tiledb_utils.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_utils.dir/link.d 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src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Linking CXX shared library libgenomicsdb.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledbgenomicsdb.dir/link.txt --verbose=1 [ 86%] Linking CXX static library libgenomicsdb.a cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -P CMakeFiles/genomicsdb.dir/cmake_clean_target.cmake [ 86%] Linking CXX executable test_posixfs cd 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CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_posixfs.dir/link.d CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -o test_posixfs ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target test_posixfs ct_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -Wl,-rpath,/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core: /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_symlink_library libgenomicsdb.so.1.5.4 libgenomicsdb.so.1 libgenomicsdb.so make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target tiledbgenomicsdb make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 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_GenomicsDBQuery.cc.o [ 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_jni_init.cc.o [ 87%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQuery.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_jni_init.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:29: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api/tiledb.h:44, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api/tiledb_utils.h:39, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/vcf2binary.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 87%] Linking CXX executable test_expressions cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_expressions.dir/link.txt --verbose=1 /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniInitializeGenomicsDBImporterObject(JNIEnv*, jobject, jstring, jint)': /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:102:3: warning: control reaches end of non-void function [-Wreturn-type] 102 | } | ^ /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniSetupGenomicsDBLoader(JNIEnv*, jobject, jlong, jstring)': /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:159:3: warning: control reaches end of non-void function [-Wreturn-type] 159 | } | ^ /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jboolean Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniImportBatch(JNIEnv*, jobject, jlong, jlongArray)': /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:231:3: warning: control reaches end of non-void function [-Wreturn-type] 231 | } | ^ [ 87%] Linking CXX executable test_sparse_array_api cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sparse_array_api.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_expressions.dir/link.d CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -o test_expressions ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 87%] Built target test_expressions /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_sparse_array_api.dir/link.d CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -o test_sparse_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 87%] Built target test_sparse_array_api _mapping.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o /usr/bin/ranlib libgenomicsdb.a make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 87%] Built target genomicsdb 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 make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/depend make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/build make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/build make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 90%] Building CXX object tools/CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o [ 90%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o [ 90%] Building CXX object tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o [ 90%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o [ 90%] Building CXX object src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o [ 91%] Building CXX object src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o [ 91%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o [ 91%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o [ 91%] Building CXX object tools/CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o [ 91%] Building CXX object tools/CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o [ 92%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/ctest_main.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/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-1.5.5/tools/src/vcf_histogram.cc cd /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/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-1.5.5/tools/src/gt_mpi_gather.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o -MF CMakeFiles/ctests.dir/src/test_pb.cc.o.d -o CMakeFiles/ctests.dir/src/test_pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_pb.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/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-1.5.5/tools/src/vcf2genomicsdb_init.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/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-1.5.5/src/test/cpp/src/test_genomicsdb_demo.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o -MF 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src/test/cpp/CMakeFiles/ctests.dir/src/ctest_main.cc.o -MF CMakeFiles/ctests.dir/src/ctest_main.cc.o.d -o CMakeFiles/ctests.dir/src/ctest_main.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/ctest_main.cc [ 93%] Building CXX object tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_config.cc.o -MF CMakeFiles/ctests.dir/src/test_config.cc.o.d -o CMakeFiles/ctests.dir/src/test_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_config.cc [ 93%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/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-1.5.5/genomicsdb-htslib 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-ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -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-1.5.5/tools/src/create_genomicsdb_workspace.cc [ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -MF CMakeFiles/ctests.dir/src/test_multid_vector.cc.o.d -o CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_multid_vector.cc [ 94%] Building CXX object tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o [ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o [ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb 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-I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o -MF CMakeFiles/ctests.dir/src/test_logger.cc.o.d -o CMakeFiles/ctests.dir/src/test_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_logger.cc [ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o -MF CMakeFiles/api_tests.dir/src/ctest_main.cc.o.d -o CMakeFiles/api_tests.dir/src/ctest_main.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/ctest_main.cc [ 95%] Building CXX object example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils 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-I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -MF CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o.d -o CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_htslib_plugin.cc cd /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o -MF CMakeFiles/ctests.dir/src/test_bgen.cc.o.d -o CMakeFiles/ctests.dir/src/test_bgen.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_bgen.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o -MF 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o -MF CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o.d -o CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_gt_remapper.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -MF CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o.d -o CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -MF CMakeFiles/ctests.dir/src/test_mem_utils.cc.o.d -o CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_mem_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -MF CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/tools/include/vcfdiff.h:31, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/tools/include/vcfdiff.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, 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-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:30: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In constructor 'VCFDiffFile::VCFDiffFile(const std::string&, const std::string&)': /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:83:41: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 83 | std::string field_name = std::move(std::string(bcf_hdr_int2id(m_hdr, BCF_DT_ID, i))); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:83:41: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In member function 'void VCFDiffFile::compare_line(const bcf_hdr_t*, bcf1_t*)': /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 591 | auto gold_ID_set = std::move(get_ID_set(gold_line)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 592 | auto test_ID_set = std::move(get_ID_set(m_line)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_query_variants.cc:31: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, 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-1.5.5/src/test/cpp/src/test_query_variants.cc:28: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_columnar_gvcf_iterator.cc:31: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, 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-1.5.5/src/test/cpp/src/test_columnar_gvcf_iterator.cc:29: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_multid_vector.cc:27: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, 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-1.5.5/src/test/cpp/src/test_multid_vector.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_algobase.h:65, from /usr/include/c++/15/bits/hashtable_policy.h:36, from /usr/include/c++/15/bits/hashtable.h:37, from /usr/include/c++/15/bits/unordered_map.h:33, from /usr/include/c++/15/unordered_map:43, from /usr/include/c++/15/functional:65, from /usr/include/spdlog/common.h:13, from /usr/include/spdlog/spdlog.h:12, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/genomicsdb_logger.h:41, from /build/reproducible-path/genomicsdb-1.5.5/tools/include/common.h:27, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf_histogram.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/vcf2binary.h:26, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf_histogram.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:29: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/genomicsdb_importer.h:25, from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc: In function 'int main(int, char**)': /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:165:45: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 165 | auto loader_json_config_file = std::move(std::string(argv[optind])); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:165:45: note: remove 'std::move' call [ 96%] Linking CXX executable test_genomicsdb_bcf_generator cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_bcf_generator.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -o test_genomicsdb_bcf_generator -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 96%] Linking CXX shared library libgenomicsdbjni.so [ 96%] Built target test_genomicsdb_bcf_generator cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdbjni.dir/link.txt --verbose=1 [ 96%] Linking CXX executable gt_mpi_gather cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/gt_mpi_gather.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,--dependency-file=CMakeFiles/genomicsdbjni.dir/link.d -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -shared -Wl,-soname,libgenomicsdbjni.so -o libgenomicsdbjni.so CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib libgenomicsdb.so.1.5.4 ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 96%] Built target genomicsdbjni /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/gt_mpi_gather.dir/link.d CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o -o gt_mpi_gather -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 96%] Built target gt_mpi_gather [ 96%] Linking CXX executable create_genomicsdb_workspace cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/create_genomicsdb_workspace.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/create_genomicsdb_workspace.dir/link.d CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -o create_genomicsdb_workspace -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 96%] Built target create_genomicsdb_workspace [ 97%] Linking CXX executable vcfdiff cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfdiff.dir/link.txt --verbose=1 [ 97%] Linking CXX executable test_genomicsdb_demo cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_demo.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcfdiff.dir/link.d CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o -o vcfdiff -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 97%] Built target vcfdiff /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_demo.dir/link.d CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o -o test_genomicsdb_demo -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 97%] Built target test_genomicsdb_demo [ 97%] Linking CXX executable api_tests cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/api_tests.dir/link.txt --verbose=1 [ 97%] Linking CXX executable vcf_histogram cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf_histogram.dir/link.txt --verbose=1 [ 98%] Linking CXX executable consolidate_genomicsdb_array cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/consolidate_genomicsdb_array.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/api_tests.dir/link.d CMakeFiles/api_tests.dir/src/ctest_main.cc.o CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -o api_tests -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E tar xzf /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/../inputs/test.tgz make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 98%] Built target api_tests [ 99%] Linking CXX executable vcf2genomicsdb cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf_histogram.dir/link.d CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o -o vcf_histogram -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 99%] Built target vcf_histogram [ 99%] Linking CXX executable test_genomicsdb_importer cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_importer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/consolidate_genomicsdb_array.dir/link.d CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -o consolidate_genomicsdb_array -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 99%] Built target consolidate_genomicsdb_array /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf2genomicsdb.dir/link.d CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -o vcf2genomicsdb -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 99%] Built target vcf2genomicsdb /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_importer.dir/link.d CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -o test_genomicsdb_importer -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 99%] Built target test_genomicsdb_importer [100%] Linking CXX executable ctests cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/ctests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/ctests.dir/link.d CMakeFiles/ctests.dir/src/ctest_main.cc.o CMakeFiles/ctests.dir/src/test_config.cc.o CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o CMakeFiles/ctests.dir/src/test_multid_vector.cc.o CMakeFiles/ctests.dir/src/test_pb.cc.o CMakeFiles/ctests.dir/src/test_logger.cc.o CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o CMakeFiles/ctests.dir/src/test_bgen.cc.o CMakeFiles/ctests.dir/src/test_query_variants.cc.o CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -o ctests -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [100%] Built target ctests [100%] Linking CXX executable vcf2genomicsdb_init cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb_init.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf2genomicsdb_init.dir/link.d CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o -o vcf2genomicsdb_init -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [100%] Built target vcf2genomicsdb_init make[3]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' debian/rules override_dh_auto_build-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Building the Java part with Maven. dh_auto_build --buildsystem=maven /usr/lib/jvm/default-java/bin/java -noverify -cp /usr/share/maven/boot/plexus-classworlds-2.x.jar -Dmaven.home=/usr/share/maven -Dmaven.multiModuleProjectDirectory=/build/reproducible-path/genomicsdb-1.5.5 -Dclassworlds.conf=/etc/maven/m2-debian.conf -Dproperties.file.manual=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.properties org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.5/debian -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo --batch-mode package -DskipTests -Dnotimestamp=true -Dlocale=en_US OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release. [INFO] Scanning for projects... [INFO] [INFO] ---------------------< org.genomicsdb:genomicsdb >---------------------- [INFO] Building org.genomicsdb:genomicsdb 1.5.5 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [WARNING] The artifact com.googlecode.json-simple:json-simple:jar:debian has been relocated to com.github.cliftonlabs:json-simple:jar:debian [INFO] [INFO] --- antrun:3.1.0:run (exec-protoc) @ genomicsdb --- [INFO] Executing tasks [INFO] [mkdir] Created dir: /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java [INFO] Executed tasks [INFO] [INFO] --- build-helper:3.3.0:add-source (add-source) @ genomicsdb --- [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/src/main/scala added. [INFO] [INFO] --- resources:3.3.1:resources (default-resources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.5/src/main/resources [INFO] [INFO] --- compiler:3.13.0:compile (default-compile) @ genomicsdb --- [INFO] Recompiling the module because of changed source code. [INFO] Compiling 30 source files with javac [debug target 17] to build/classes [WARNING] system modules path not set in conjunction with -source 17 [INFO] Annotation processing is enabled because one or more processors were found on the class path. A future release of javac may disable annotation processing unless at least one processor is specified by name (-processor), or a search path is specified (--processor-path, --processor-module-path), or annotation processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBVidMapProto.java:[93,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBTimer.java:[37,14] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/ImportConfig.java:[76,36] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[177,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2228,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2269,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[792,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3035,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3987,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBCallsetsMapProto.java:[139,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/exception/GenomicsDBException.java:[28,8] serializable class org.genomicsdb.exception.GenomicsDBException has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,50] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[160,28] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[333,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[333,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[334,9] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[334,30] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[336,9] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[336,41] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[338,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[338,36] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[342,17] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[342,40] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[462,17] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[462,45] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[483,9] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[483,41] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[690,94] found raw type: java.util.concurrent.CompletableFuture missing type arguments for generic class java.util.concurrent.CompletableFuture [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[224,46] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[99,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[109,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[50,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.Pair has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[70,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.VariantCall has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[76,25] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[110,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.Interval has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[112,23] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[483,84] PARSER in org.genomicsdb.model.Coordinates.GenomicsDBColumnOrInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[5485,72] PARSER in org.genomicsdb.model.Coordinates.ContigInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[4407,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[10171,72] PARSER in org.genomicsdb.model.Coordinates.ContigInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7553,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7594,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7635,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[54,27] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[139,58] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[79,39] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[206,31] previous possible 'this' escape happens here via invocation [INFO] [INFO] --- antrun:3.1.0:run (copy-native-libs) @ genomicsdb --- [INFO] Executing tasks [WARNING] [exec] The command attribute is deprecated. [exec] Please use the executable attribute and nested arg elements. [INFO] [exec] cp: cannot stat '/build/reproducible-path/genomicsdb-1.5.5/build/src/main/libtiledbgenomicsdb.dylib': No such file or directory [INFO] [exec] Result: 1 [WARNING] [exec] The command attribute is deprecated. [exec] Please use the executable attribute and nested arg elements. [INFO] [exec] cp: cannot stat '/build/reproducible-path/genomicsdb-1.5.5/build/src/main/libtiledbgenomicsdb.so': No such file or directory [INFO] [exec] Result: 1 [INFO] Executed tasks [INFO] [INFO] --- resources:3.3.1:testResources (default-testResources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.5/src/test/resources [INFO] [INFO] --- antrun:3.1.0:run (unzip-test-artifacts) @ genomicsdb --- [INFO] Executing tasks [INFO] [mkdir] Created dir: /build/reproducible-path/genomicsdb-1.5.5/build/test [INFO] [copy] Copying 1 file to /build/reproducible-path/genomicsdb-1.5.5/build/test [INFO] [gunzip] Expanding test.tar.gz to /build/reproducible-path/genomicsdb-1.5.5/build/test/test.tar [INFO] [untar] Expanding: /build/reproducible-path/genomicsdb-1.5.5/build/test/test.tar into /build/reproducible-path/genomicsdb-1.5.5/build/test [INFO] Executed tasks [INFO] [INFO] --- compiler:3.13.0:testCompile (default-testCompile) @ genomicsdb --- [INFO] Recompiling the module because of changed dependency. [INFO] Compiling 12 source files with javac [debug target 17] to build/test-classes [WARNING] system modules path not set in conjunction with -source 17 [INFO] Annotation processing is enabled because one or more processors were found on the class path. A future release of javac may disable annotation processing unless at least one processor is specified by name (-processor), or a search path is specified (--processor-path, --processor-module-path), or annotation processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] No processor claimed any of these annotations: /org.testng.annotations.BeforeClass,/org.testng.annotations.Test,/org.testng.annotations.DataProvider,/org.testng.annotations.BeforeMethod,/org.testng.annotations.AfterMethod [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,38] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[176,13] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[176,39] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[181,17] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[181,44] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[201,18] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[257,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[289,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[322,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[362,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[398,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[443,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[482,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[536,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [INFO] [INFO] --- surefire:2.22.3:test (default-test) @ genomicsdb --- [INFO] Tests are skipped. [INFO] [INFO] --- jar:3.3.0:jar (default-jar) @ genomicsdb --- [INFO] Building jar: /build/reproducible-path/genomicsdb-1.5.5/build/genomicsdb-1.5.5.jar [INFO] [INFO] --- jar:3.3.0:jar (main) @ genomicsdb --- [INFO] Building jar: /build/reproducible-path/genomicsdb-1.5.5/build/genomicsdb-1.5.5-main.jar [INFO] [INFO] --- jar:3.3.0:jar (spark) @ genomicsdb --- [INFO] Building jar: /build/reproducible-path/genomicsdb-1.5.5/build/genomicsdb-1.5.5-spark.jar [INFO] [INFO] --- antrun:3.1.0:run (replace-core-jar) @ genomicsdb --- [INFO] Executing tasks [INFO] [move] Moving 1 file to /build/reproducible-path/genomicsdb-1.5.5/build [INFO] [move] Moving 1 file to /build/reproducible-path/genomicsdb-1.5.5/build [INFO] Executed tasks [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 7.659 s [INFO] Finished at: 2025-10-30T22:43:09-12:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_build -O--buildsystem=cmake debian/rules override_dh_auto_test-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_test -a || true cd obj-x86_64-linux-gnu && make -j40 test ARGS\+=--verbose ARGS\+=-j40 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j40 UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end Connected to MAKE jobserver test 1 Start 1: test_array_schema 1: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_array_schema 1: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 1: Test timeout computed to be: 10000000 test 2 Start 2: test_print_array_schema 2: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_print_array_schema 2: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 2: Test timeout computed to be: 10000000 test 3 Start 3: test_print_book_keeping 3: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_print_book_keeping 3: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 3: Test timeout computed to be: 10000000 test 4 Start 4: test_sparse_array_benchmark 4: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_sparse_array_benchmark 4: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 4: Test timeout computed to be: 10000000 test 5 Start 5: test_array_iterator 5: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_array_iterator 5: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 5: Test timeout computed to be: 10000000 test 6 Start 6: test_array_schema_api 6: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_array_schema_api 6: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 6: Test timeout computed to be: 10000000 test 7 Start 7: test_dense_array_api 7: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_dense_array_api 7: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 7: Test timeout computed to be: 10000000 test 8 Start 8: test_sparse_array_api 8: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_sparse_array_api 8: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 8: Test timeout computed to be: 10000000 test 9 Start 9: test_tiledb_utils 9: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_tiledb_utils 9: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 9: Test timeout computed to be: 10000000 test 10 Start 10: test_codec 10: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_codec 10: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 10: Test timeout computed to be: 10000000 test 11 Start 11: test_codec_filter 11: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_codec_filter 11: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 11: Test timeout computed to be: 10000000 test 12 Start 12: test_expressions 12: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_expressions 12: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 12: Test timeout computed to be: 10000000 test 13 Start 13: test_filter_api 13: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_filter_api 13: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 13: Test timeout computed to be: 10000000 test 14 Start 14: test_mem_utils 14: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_mem_utils 14: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 14: Test timeout computed to be: 10000000 test 15 Start 15: test_uri 15: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_uri 15: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 15: Test timeout computed to be: 10000000 test 16 Start 16: test_utils 16: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_utils 16: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 16: Test timeout computed to be: 10000000 test 17 Start 17: test_posixfs 17: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_posixfs 17: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 17: Test timeout computed to be: 10000000 test 18 Start 18: test_storage_buffer 18: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_storage_buffer 18: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 18: Test timeout computed to be: 10000000 test 19 Start 19: ci_tests 19: Test command: /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/run_examples.sh "&&" "echo" "Running diff with expected_results" "&&" "diff" "log" "/build/reproducible-path/genomicsdb-1.5.5/examples/expected_results" "&&" "/build/reproducible-path/genomicsdb-1.5.5/examples/run_examples_parallel.sh" 19: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples 19: Test timeout computed to be: 10000000 test 20 Start 20: ctests 20: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests "-d" "yes" 20: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp 20: Test timeout computed to be: 10000000 test 21 Start 21: api_tests 21: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/api_tests "-d" "yes" 21: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp 21: Test timeout computed to be: 10000000 test 22 Start 22: tools_tests 22: Test command: /build/reproducible-path/genomicsdb-1.5.5/tests/test_tools.sh "/build/reproducible-path/genomicsdb-1.5.5/tests/inputs/vcfs" "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools" "1" 22: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools 22: Test timeout computed to be: 10000000 1: Randomness seeded to: 2429247174 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. 1: [TileDB::ArraySchema] Error: Cannot set cell order; Invalid cell order. 1: [TileDB::ArraySchema] Error: Unsupported. For a given VAR attribute, both compression and offsets_compression have to either have compression or not 1: . 1: [TileDB::ArraySchema] Error: Cannot set dimensions; No dimensions given. 1: [TileDB::ArraySchema] Error: Cannot set dimensions; The number of dimensions must be positive. 1: [TileDB::ArraySchema] Error: Cannot set dimensions; Duplicate dimension names. 1: [TileDB::ArraySchema] Error: Cannot set dimensions; Attribute name same as dimension name. 1: [TileDB::ArraySchema] Error: Cannot set types; Types not provided. 1: [TileDB::ArraySchema] Error: Cannot set types; Invalid type. 1: [TileDB::ArraySchema] Error: Cannot set domain; Domain not provided. 1: [TileDB::ArraySchema] Error: Cannot set tile order; Invalid tile order. 1: Array Schema Version: 1: 2 1: Array workspace: 1: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 1: Array name: 1: 1: Dimension names: 1: dim1 1: dim2 1: Attribute names: 1: test_attr 1: test_attr1 1: Domain: 1: dim1: [0,99] 1: dim2: [0,99] 1: Types: 1: test_attr: int32[1] 1: test_attr1: int32[var] 1: Coordinates: int32 1: Cell sizes (in bytes): 1: test_attr: 4 1: test_attr1: var 1: Coordinates: 8 1: Dense: 1: false 1: Tile types: 1: irregular 1: Tile order: 1: - 1: Cell order: 1: column-major 1: Capacity: 1: 10000 1: Tile extents: 1: - 1: Compression for test_attr 1: Type = GZIP 1: Level= -1 1: Compression for test_attr1 1: Type = GZIP 1: Level= -1 1: Compression for offsets of test_attr1 1: Type = GZIP + DELTA_ENCODE 1: Level= -1 1: Compression for Coordinates: 1: Type = GZIP 1: Array Schema Version: 1: 2 1: Array name: 1: this_array 1: Dimension names: 1: one_dim 1: Attribute names: 1: this_attribute 1: Domain: 1: one_dim: [1,100] 1: Types: 1: this_attribute: int32[1] 1: Coordinates: int32 1: Cell sizes (in bytes): 1: this_attribute: 4 1: Coordinates: 4 1: Dense: 1: false 1: Tile types: 1: regular 1: Tile order: 1: row-major 1: Cell order: 1: row-major 1: Capacity: 1: - 1: Tile extents: 1: one_dim: 25 1: Compression for this_attribute 1: Type = NONE 1: Level= -1 1: Compression for Coordinates: 1: Type = NONE 1: Array Schema Version: 1: 2 1: Array name: 1: this_array 1: Dimension names: 1: one_dim 1: Attribute names: 1: this_attribute 1: Domain: 1: one_dim: [1,100] 1: Types: 1: this_attribute: int32[1] 1: Coordinates: int32 1: Cell sizes (in bytes): 1: this_attribute: 4 1: Coordinates: 4 1: Dense: 1: false 1: Tile types: 1: regular 1: Tile order: 1: row-major 1: Cell order: 1: row-major 1: Capacity: 1: - 1: Tile extents: 1: one_dim: 25 1: Compression for this_attribute 1: Type = NONE 1: Level= -1 1: Compression for Coordinates: 1: Type = NONE 1: Array Schema Version: 1: 2 1: Array name: 1: this_array_64 1: Dimension names: 1: one_dim_64 1: Attribute names: 1: this_attribute 1: Domain: 1: one_dim_64: [1,1] 1: Types: 1: this_attribute: int64[1] 1: Coordinates: int64 1: Cell sizes (in bytes): 1: this_attribute: 8 1: Coordinates: 8 1: Dense: 1: false 1: Tile types: 1: regular 1: Tile order: 1: row-major 1: Cell order: 1: row-major 1: Capacity: 1: - 1: Tile extents: 1: one_dim_64: 25 1: Compression for this_attribute 1: Type = NONE 1: Level= -1 1: Compression for Coordinates: 1: Type = NONE 1: =============================================================================== 1: All tests passed (43 assertions in 7 test cases) 1: 2: No arguments specified 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: 3573239133 4: =============================================================================== 4: test cases: 1 | 1 passed 4: assertions: - none - 4: 6: Randomness seeded to: 784891193 6: =============================================================================== 6: All tests passed (335 assertions in 13 test cases) 6: 9: Randomness seeded to: 65439533 9: [TileDB::utils] Error: (set_working_dir) Failed to set_working_dir as /tmp/TileDBTestFqX05S/WORKSPACE.nonexistent does not exist 9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestSyCVWs/WORKSPACE errno=2(No such file or directory) 9: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=/tmp/TileDBTestSyCVWs/WORKSPACE errno=2(No such file or directory) 9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestqJVbDE/WORKSPACE errno=2(No such file or directory) 10: Randomness seeded to: 4021317020 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 10: [TileDB::Codec] Error: Could not decompress with GZIP. 10: [TileDB::utils] Error: (gzip_handle_error) Cannot decompress with GZIP: inflate error: Z_DATA_ERROR 10: [TileDB::Codec] Error: Could not decompress with GZIP. 10: [TileDB::Codec] Error: Codec for compression type=15 has already been registered. 10: =============================================================================== 10: All tests passed (31 assertions in 5 test cases) 10: 11: Randomness seeded to: 1400445467 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. 11: [TileDB::CodecFilter] Error: virtual method should be overridden. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: =============================================================================== 11: All tests passed (192 assertions in 2 test cases) 11: 12: Randomness seeded to: 2439974207 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 12: [TileDB::Expression] Error: (init) Attribute a2 in expression filter not present in the array schema 12: [TileDB::Expression] Error: (init) Parser SetExpr error for expression 'a1 === 22': Unexpected operator "=" found at position 5. 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: 2805146446 14: Thu Oct 30 22:43:10 2025 Memory stats Tracking memory usage START size=6MB resident=4MB share=3MB text=496KB lib=0 data=536KB dt=0 15: Randomness seeded to: 2549943578 15: =============================================================================== 15: All tests passed (131 assertions in 2 test cases) 15: 16: Randomness seeded to: 807818648 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 16: [TileDB::utils] Error: (RLE_compress_coords_row) Filed compressing coordinates with RLE; output buffer overflow 16: [TileDB::utils] Error: (RLE_compress_coords_col) Failed compressing coordinates with RLE; invalid buffer format 16: [TileDB::utils] Error: (RLE_compress_coords_col) Failed compressing coordinates with RLE; output buffer overflow 16: [TileDB::FileSystem] Error: (create_dir) Cannot create directory path=/non-existent-dir/dir errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/non-existent-dir/file errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=/non-existent-dir/file errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=/non-existent-dir/file errno=2(No such file or directory) 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: 1119110582 17: [TileDB::FileSystem] Error: (create_dir) Cannot create directory; Directory already exists path=/tmp/TileDBTestfXpQWN/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/TileDBTestfXpQWN/test_posixfs_dirdir errno=21(Is a directory) 17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTestfXpQWN/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: 957455563 18: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTestwMBXQx/test-file 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/tmp/TileDBTestwMBXQx/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/TileDBTestwMBXQx/test-file 18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestwMBXQx/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) 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: (gzip_write_buffer) Cannot write bytes path=/non-existent-file errno=13(Permission denied) 18: [TileDB::StorageBuffer] Error: (write_buffer) Cannot compress and/or 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) 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/non-existent-file errno=2(No such file or directory) 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/non-existent-file errno=2(No such file or directory) 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/non-existent-file errno=2(No such file or directory) 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/non-existent-file errno=2(No such file or directory) 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/TileDBTestZLKnCv/compressed_foo 1/22 Test #1: test_array_schema ................ Passed 0.04 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 0.01 sec 12: [TileDB::Expression] Error: (init) Parser SetExpr error for expression 'resolve(a1) &= ""': Too few parameters passed to function "resolve". 12: [TileDB::Expression] Error: (init) Expression parsing for dense arrays not yet implemented 12: =============================================================================== 12: All tests passed (3334 assertions in 83 test cases) 12: 9/22 Test #12: test_expressions ................. Passed 0.02 sec 19: Example 1: Running ./tiledb_workspace_group_create... 21: Randomness seeded to: 48342249 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-ws 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-ws errno=2(No such file or directory) 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws[TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-ws errno=2(No such file or directory) 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 19: Example 1: Done running ./tiledb_workspace_group_create 19: Example 2: Running ./tiledb_ls_workspaces... 19: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=&& errno=2(No such file or directory) 19: Example 2: Done running ./tiledb_ls_workspaces 19: Example 3: Running ./tiledb_array_create_dense... 13: Randomness seeded to: 2613316247 13: =============================================================================== 13: All tests passed (317 assertions in 3 test cases) 13: 10/22 Test #13: test_filter_api .................. Passed 0.05 sec 19: Example 3: Done running ./tiledb_array_create_dense 19: Example 4: Running ./tiledb_array_create_sparse... 19: Example 4: Done running ./tiledb_array_create_sparse 19: Example 5: Running ./tiledb_array_primitive... 20: 22:43:11.028 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:11.028 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:11.028 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 20: Randomness seeded to: 1755063630 20: 0.126 s: Check loader configuration with json file 20: 22:43:11.029 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:11.029 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:11.029 DEBUG NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.030 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:11.030 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:11.030 DEBUG NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.031 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:11.031 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:11.031 DEBUG NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.033 INFO NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.033 INFO NativeGenomicsDB - pid=60927 tid=60927 This is a test 20: 22:43:11.033 WARN NativeGenomicsDB - pid=60927 tid=60927 This is a test 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 This is a test 20: 22:43:11.033 DEBUG NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.033 INFO NativeGenomicsDB - pid=60927 tid=60927 i=1 str=This is a test 20: 22:43:11.033 WARN NativeGenomicsDB - pid=60927 tid=60927 i=2 str=This is a test 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 i=3 str=This is a test 20: 22:43:11.033 DEBUG NativeGenomicsDB - pid=60927 tid=60927 i=4 str=This is a test 20: 22:43:11.033 INFO NativeGenomicsDB - pid=60927 tid=60927 i=6 str=This is a once_only test 20: 22:43:11.033 WARN NativeGenomicsDB - pid=60927 tid=60927 i=7 str=This is a once_only test 20: 0.000 s: test logger format 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 i=1 str=This is a test 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Test Exception 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Test Exception 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Test Exception 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Native Stack Trace: 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x5617ab96afb2] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa4be6) [0x5617ab95bbe6] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x5617abb0f51c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x5617abb10018] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x5617abb1047a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x5617abae3653] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x5617abae393c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x5617ab93159e] 20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7fdacca33ca8] 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Test Exception 20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Native Stack Trace: 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x5617ab96afb2] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa4c09) [0x5617ab95bc09] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x5617abb0f51c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x5617abb10018] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x5617abb1047a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x5617abae3653] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x5617abae393c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x5617ab93159e] 20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7fdacca33ca8] 20: 0.000 s: test logger exceptions 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x5617ab96afb2] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa7d3a) [0x5617ab95ed3a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x5617abb0f51c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x5617abb10018] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x5617abb1047a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x5617abae3653] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x5617abae393c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x5617ab93159e] 20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7fdacca33ca8] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x5617ab96afb2] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa7d60) [0x5617ab95ed60] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x5617abb0f51c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x5617abb10018] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x5617abb1047a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x5617abae3653] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x5617abae393c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x5617ab93159e] 20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7fdacca33ca8] 20: This is a test 20: 0.000 s: test explicit logger 20: 22:43:11.034 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:11.034 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:11.034 DEBUG NativeGenomicsDB - pid=60927 tid=60927 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) 17: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=non-existent-dir errno=2(No such file or directory) 19: Array name: my_workspace/dense_arrays/my_array_A 19: Attributes: a1 a2 a3 19: The array is dense 19: Array name: my_workspace/sparse_arrays/my_array_B 19: Attributes: a1 a2 a3 19: The array is sparse 19: Example 5: Done running ./tiledb_array_primitive 20: 0.070 s: gvcf iterator 20: 22:43:11.104 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:11.104 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:11.104 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 19: Example 6: Running ./tiledb_array_write_dense_1... 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 0.586 s: utils 21: 0.000 s: api empty_args 16: =============================================================================== 16: All tests passed (86 assertions in 6 test cases) 16: 11/22 Test #16: test_utils ....................... Passed 0.61 sec 20: 0.209 s: columnar_gvcf_iterator_test 21: 0.019 s: api query_variants direct DP 21: 0.007 s: api query_variants direct DP with huge row range 21: 0.007 s: api query_variants direct DP with huge disjoint row ranges 21: 0.011 s: api query_variants direct DP with range composed of multiple points 21: 0.011 s: api query_variants direct DP with range composed of overlapping ranges 21: 22:43:11.367 ERROR NativeGenomicsDB - pid=60929 tid=60929 Query interval 0:-100-1 is out of bounds 21: 0.006 s: api query_variants direct DP with invalid row range 21: 0.015 s: api query_variants direct DP and GT 9: 7e820c3ee657b1a27a56a7be9d202a7a7e820c3ee657b1a27a56a7be9d202a7a[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestG9gfWy/test_file 9: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestG9gfWy/test_file 20: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 hts_plugin could not find /tmp/GenomicsDBJRab39 20: [TileDB] Error: No TileDB support for URL=dfdfd://ddd. 20: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 htslib_plugin could not open dfdfd://ddd 20: No TileDB support for URL=dfdfd://ddd 20: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 hts_plugin could not find /tmp/GenomicsDBJRab39/foo 20: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 hts_plugin could not find /tmp/GenomicsDBJRab39/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: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 0.123 s: test htslib plugin 20: 0.000 s: alleles_combiner 20: 0.000 s: gt_remapper 21: 0.068 s: api query_variants direct DP and GT with PP 21: 22:43:11.451 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.451 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.451 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:11.459 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.459 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.460 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:11.470 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.470 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.470 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.020 s: api query_variants with json 21: 22:43:11.470 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.470 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.471 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/ws/t0_1_2/.__consolidation_lock 21: 22:43:11.484 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.484 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.484 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:11.496 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.496 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.496 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.027 s: api query variants with json string 17: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/tmp/TileDBTestHMv4qR/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/TileDBTestQXgxmj/test_posixfs_dirread_write/foo 17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestQXgxmj/test_posixfs_dirread_write/foo 17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestQXgxmj/test_posixfs_dirread_write/foo 21: 22:43:11.697 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:11.697 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:11.698 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 14: Thu Oct 30 22:43:11 2025 Memory stats Tracking memory usage END size=6MB resident=4MB share=4MB text=496KB lib=0 data=536KB dt=0 14: Test rusage 14: user cpu time=0seconds 0microseconds 14: sys cpu time=0seconds 2143microseconds 14: maximum resident set size: 4064KB 14: =============================================================================== 14: test cases: 1 | 1 passed 14: assertions: - none - 14: 12/22 Test #14: test_mem_utils ................... Passed 1.00 sec 21: 0.215 s: api query variants with enabled shared posixfs optimizations 9: =============================================================================== 9: All tests passed (10488239 assertions in 9 test cases) 9: 13/22 Test #9: test_tiledb_utils ................ Passed 1.20 sec 21: ---------------- 21: Interval:[0,9223372036854775806] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 21: 0.278 s: api query_variant_calls direct 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 0.025 s: api query_variant_calls direct DP and GT 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0|0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 0.025 s: api query_variant_calls direct DP and GT with PP 21: 22:43:12.041 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.041 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.041 DEBUG NativeGenomicsDB - pid=60929 tid=60929 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: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 21: 22:43:12.050 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.050 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.051 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.057 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.057 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.057 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.017 s: api query_variant_calls with json 21: 22:43:12.058 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.058 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.058 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.058 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.058 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.059 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.059 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.067 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.067 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.067 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.068 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.068 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.068 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.068 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.077 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.077 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.077 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.077 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.077 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.078 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.078 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.006 s: Try query with contig intervals instead of tiledb column intervals 21: 0.026 s: api query_variant_calls with protobuf 21: 22:43:12.083 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.083 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.083 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.084 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.084 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.084 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.084 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.093 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.093 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.093 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.093 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.093 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.093 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.093 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.102 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.102 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.102 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.103 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.103 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.103 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.103 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.006 s: Try query with a filter 21: 0.025 s: api query_variant_calls with protobuf 21: 22:43:12.108 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.108 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.109 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.109 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.109 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.109 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.109 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.118 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.118 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.118 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.119 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.119 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.119 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.119 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.130 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.130 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.131 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.131 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.131 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.131 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.132 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.013 s: Try query with a filter and workspace with GT ploidy 21: 0.035 s: api query_variant_calls with protobuf 21: 22:43:12.143 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.144 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.144 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.145 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.145 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.145 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.145 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.163 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.163 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.163 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.164 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.164 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.164 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.164 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.180 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.180 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.181 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.181 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.181 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.181 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.181 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.008 s: Try query with a filter and a small segment size to force TileDB buffers overflow 21: 0.045 s: api query_variant_calls with protobuf 21: 22:43:12.188 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.188 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.189 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.189 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.189 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.190 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.190 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.200 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.200 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.200 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.201 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.201 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.201 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.201 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 17: [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) 17: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) 21: 22:43:12.213 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.213 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.213 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.214 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.214 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.214 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.214 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 19: Example 6: Done running ./tiledb_array_write_dense_1 19: Example 7: Running ./tiledb_array_write_sparse_1... 21: 0.015 s: Try query with POS and ROW with no match 21: 0.040 s: api query_variant_calls with protobuf 21: 22:43:12.228 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.228 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.229 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.229 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.229 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.229 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.229 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 17: [TileDB::FileSystem] Error: (read_from_file) Cannot open simultaneously for reads/writes path=test_posixfs_dir_locking/foo 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 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 17: =============================================================================== 17: All tests passed (258 assertions in 11 test cases) 17: 14/22 Test #17: test_posixfs ..................... Passed 1.54 sec 21: 22:43:12.246 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.246 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.246 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.247 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.247 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.247 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.247 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 19: Example 7: Done running ./tiledb_array_write_sparse_1 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.267 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.267 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.268 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.269 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.269 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.269 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.269 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 5: Randomness seeded to: 3493341140 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: 15/22 Test #5: test_array_iterator .............. Passed 1.59 sec 21: 0.013 s: Try query with POS and ROW 21: 0.053 s: api query_variant_calls with protobuf 21: 22:43:12.281 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.281 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.281 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.282 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.282 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.282 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.282 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.300 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.300 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.300 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.301 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.301 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.302 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.302 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.320 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.320 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.320 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.321 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.321 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.321 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.321 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.014 s: Try query with ISHOMREF 21: 0.053 s: api query_variant_calls with protobuf 21: 22:43:12.334 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.334 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.334 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.335 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.335 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.335 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.335 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.353 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.354 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.354 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.354 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.354 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.355 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.355 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.365 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.365 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.365 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.366 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.366 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.366 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.366 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.008 s: Try query with ISHOMREF 21: 0.039 s: api query_variant_calls with protobuf 21: 22:43:12.373 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.373 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.373 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.373 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.373 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.374 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.374 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.383 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.383 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.384 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.384 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.384 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.384 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.384 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.394 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.394 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.394 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.395 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.395 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.395 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.395 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.008 s: Try query with ISHOMREF 21: 0.029 s: api query_variant_calls with protobuf 21: 22:43:12.402 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.402 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.402 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.403 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.403 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.403 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.403 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 22:43:12.413 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.413 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.413 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.414 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.414 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.414 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.414 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 18: =============================================================================== 18: All tests passed (450703 assertions in 3 test cases) 18: 16/22 Test #18: test_storage_buffer .............. Passed 1.72 sec 21: 22:43:12.424 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.424 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.424 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.425 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.425 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.425 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.425 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.008 s: Try query with ISHOMREF 21: 0.030 s: api query_variant_calls with protobuf 21: 0.006 s: Base configuration 21: 0.006 s: api query_variant_calls with protobuf and config 21: 22:43:12.439 ERROR NativeGenomicsDB - pid=60929 tid=60929 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: 0.005 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: 0.006 s: Test filter test for 0 21: 0.006 s: api query_variant_calls with protobuf new 21: 0.006 s: Test filter test for 1 21: 0.006 s: api query_variant_calls with protobuf new 21: 0.006 s: Test filter test for 2 21: 0.006 s: api query_variant_calls with protobuf new 21: 0.006 s: Test filter test for 3 21: 0.006 s: api query_variant_calls with protobuf new 21: 273 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"REF":["C","G"],"GT":["C/C","G/A"],"DP":[null,null]},"HG01530":{"CHR":["1"],"POS":[17385],"REF":["G"],"GT":["G/A"],"DP":[76]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"REF":["C","G"],"GT":["C/C","T/T"],"DP":[null,120]}} 21: 21: 207 {"FIELD":["CHR","POS","REF","GT","DP"],"HG00141":[["1",12141,"C","C/C",null],["1",17385,"G","G/A",null]],"HG01530":[["1",17385,"G","G/A",76]],"HG01958":[["1",12145,"C","C/C",null],["1",17385,"G","T/T",120]]} 21: 21: 37 {"HG00141":2,"HG01530":1,"HG01958":2} 21: 21: 15 {"num_calls":5} 21: 21: 15 {"num_calls":5} 21: 21: 31 ["HG00141","HG01530","HG01958"] 21: 21: 1999 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"REF":["C","G"],"QUAL":[null,475.7699890136719],"FILTER":[null,"0"],"DP":[null,null],"BaseQRankSum":[null,-2.0959999561309816],"ClippingRankSum":[null,-1.8589999675750733],"DS":["1","1"],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MLEAC":[null,"1, 5"],"MLEAF":[null,"0.500000, 1.200000"],"MQ":[null,31.719999313354493],"RAW_MQ":[null,5.5],"MQ0":[null,8],"MQRankSum":[null,-0.32899999618530276],"ReadPosRankSum":[null,0.004999999888241291],"PGT":[null,"0|1"],"PID":[null,"17385_G_A"],"AD":[null,"58, 22, 17"],"DP_FORMAT":[2,80],"GQ":[0,99],"GT":["C/C","G/A"],"MIN_DP":[0,null],"PL":["0, 0, 0","504, 0, 9807, 678, 1870, 2548"],"SB":[null,"58, 0, 22, 0"]},"HG01530":{"CHR":["1"],"POS":[17385],"REF":["G"],"QUAL":[989.77001953125],"FILTER":[null],"DP":[76],"BaseQRankSum":[1.0460000038146973],"ClippingRankSum":[-2.242000102996826],"DS":[null],"HaplotypeScore":[null],"InbreedingCoeff":[null],"MLEAC":["1, 0"],"MLEAF":["0.500000, 0.000000"],"MQ":[59.369998931884769],"RAW_MQ":[null],"MQ0":[0],"MQRankSum":[-0.4320000112056732],"ReadPosRankSum":[2.055000066757202],"PGT":[null],"PID":[null],"AD":["40, 36, 0"],"DP_FORMAT":[76],"GQ":[99],"GT":["G/A"],"MIN_DP":[null],"PL":["1018, 0, 1116, 1137, 1224, 2361"],"SB":["9, 31, 13, 23"]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"REF":["C","G"],"QUAL":[null,3302.77001953125],"FILTER":[null,"0"],"DP":[null,120],"BaseQRankSum":[null,-2.0739998817443849],"ClippingRankSum":[null,0.5550000071525574],"DS":["1",null],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MLEAC":[null,"2, 7"],"MLEAF":[null,"1.000000, 0.700000"],"MQ":[null,29.81999969482422],"RAW_MQ":[null,2.5],"MQ0":[null,3],"MQRankSum":[null,-1.36899995803833],"ReadPosRankSum":[null,-0.10100000351667404],"PGT":[null,"0|1"],"PID":[null,"17385_G_T"],"AD":[null,"0, 120, 37"],"DP_FORMAT":[3,120],"GQ":[0,99],"GT":["C/C","T/T"],"MIN_DP":[0,null],"PL":["0, 0, 0","3336, 358, 0, 4536, 958, 7349"],"SB":[null,"0, 0, 0, 0"]}} 21: 21: 0.042 s: api query_variant_calls with JSONVariantCallProcessor 21: 0.000 s: Test genomicsdb demo test case 21: 0.020 s: api generate_vcf direct 21: 22:43:12.551 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.551 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.551 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.009 s: api generate_vcf with json 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61164 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61164 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61165 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61165 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61163 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61162 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61162 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61167 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61167 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61164 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61169 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61169 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61163 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61166 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61166 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61162 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61165 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61168 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61168 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61167 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61169 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61166 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61163 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61168 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.019 s: api generate_vcf with json multiple threads 21: 22:43:12.579 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.579 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.579 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.580 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.580 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.580 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.580 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.588 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.588 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.588 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.588 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.588 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.589 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.589 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.596 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 22:43:12.596 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.596 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.597 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 22:43:12.597 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 22:43:12.597 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 22:43:12.597 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: ---------------- 21: Interval:[0,1000000000] 21: 21: 0.019 s: api annotate query_variant_calls with test datasource 0 21: =============================================================================== 21: All tests passed (1548 assertions in 26 test cases) 21: 17/22 Test #21: api_tests ........................ Passed 1.89 sec 20: 22:43:13.453 INFO NativeGenomicsDB - pid=60927 tid=60927 Plink progress 3452039 / 6904084 = 50.00% 20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG00141 row: 0 column: 12277 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG00141 row: 0 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG01958 row: 1 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG00141 row: 0 column: 12399 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG01958 row: 1 column: 12399 contains a negative value or otherwise did not parse, full string: 0, 1, -2147483648 20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 WARN NativeGenomicsDB - pid=60927 tid=60927 GL probabilities at sample: HG01958 row: 1 column: 12499 sum to 0.8981071705534972, expected near 1. Generated BGEN may be invalid 20: 2.387 s: test bgen 20: 22:43:13.823 ERROR NativeGenomicsDB - pid=60927 tid=60927 VariantStorageManagerException exception : Could not open workspace 20: 22:43:13.823 ERROR NativeGenomicsDB - pid=60927 tid=60927 Could not open array non_existent_array in workspace /tmp/GenomicsDBrtQEzr/ws 20: 22:43:13.823 ERROR NativeGenomicsDB - pid=60927 tid=60927 VariantQueryProcessorException : Could not open array non_existent_array at workspace /tmp/GenomicsDBrtQEzr/ws 20: 0.000 s: constructor 20: 22:43:13.823 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 22:43:13.823 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 22:43:13.823 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 20: 22:43:13.829 ERROR NativeGenomicsDB - pid=60927 tid=60927 Invalid query attribute : non_existent_attribute 20: 0.006 s: test basic queries 20: 22:43:13.829 INFO NativeGenomicsDB - pid=60927 tid=60927 Mem usage Check basic memory usage rss=50M 20: 0.000 s: check basic memory usage 20: =============================================================================== 20: All tests passed (1439 assertions in 34 test cases) 20: 20: 22:43:13.829 DEBUG NativeGenomicsDB - pid=60927 tid=60927 Deleting htslib_fs_adapter tiledb_ctx_map 18/22 Test #20: ctests ........................... Passed 3.13 sec 7: Randomness seeded to: 410320414 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... 8: Randomness seeded to: 3459830065 19: Example 10: Done running ./tiledb_array_write_dense_2 8: 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] =============================================================================== 8: All tests passed (11647013 assertions in 15 test cases) 8: 19/22 Test #8: test_sparse_array_api ............ Passed 12.65 sec 19: Example 11: 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 11: Done running ./tiledb_array_read_dense_1 19: Example 12: Running ./tiledb_array_read_dense_2... 19: a1 19: ---- 19: Reading cells... 19: 9 19: 11 19: 12 19: Reading cells... 19: 13 19: 14 19: 15 19: Example 12: Done running ./tiledb_array_read_dense_2 19: Example 13: Running ./tiledb_array_write_dense_sorted... 19: Example 13: Done running ./tiledb_array_write_dense_sorted 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 (150274626 assertions in 4 test cases) 7: 20/22 Test #7: test_dense_array_api ............. Passed 16.89 sec 22: Build with DISABLE_MPI option set, not running gt_mpi_gather tests 21/22 Test #22: tools_tests ...................... Passed 20.32 sec 19: Example 14: 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 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 19: Example 16: 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: 112 M (112.1, 112.2) 19: 113 NN (113.1, 113.2) 19: 114 OOO (114.1, 114.2) 19: 115 PPPP (115.1, 115.2) 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 19: Example 18: 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: 208 u (208.1, 208.2) 19: 9 jj ( 9.1, 9.2) 19: 10 kkk ( 10.1, 10.2) 19: 211 wwww (211.1, 211.2) 19: 212 x (212.1, 212.2) 19: 213 yy (213.1, 213.2) 19: 114 OOO (114.1, 114.2) 19: 115 PPPP (115.1, 115.2) 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 19: Example 20: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (1, 1) 0 a ( 0.1, 0.2) 19: (1, 2) 1 bb ( 1.1, 1.2) 19: (1, 4) 2 ccc ( 2.1, 2.2) 19: (2, 3) 3 dddd ( 3.1, 3.2) 19: (3, 1) 4 e ( 4.1, 4.2) 19: (4, 2) 5 ff ( 5.1, 5.2) 19: (3, 3) 6 ggg ( 6.1, 6.2) 19: (3, 4) 7 hhhh ( 7.1, 7.2) 19: Example 20: Done running ./tiledb_array_read_sparse_1 19: Example 21: Running ./tiledb_array_read_sparse_filter_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: Example 21: Done running ./tiledb_array_read_sparse_filter_1 19: Example 22: Running ./tiledb_array_iterator_sparse... 19: a1 19: ---- 19: 5 19: 6 19: 7 19: Example 22: Done running ./tiledb_array_iterator_sparse 19: Example 23: Running ./tiledb_array_iterator_sparse_filter... 19: a1 19: ---- 19: 6 19: 7 19: Example 23: Done running ./tiledb_array_iterator_sparse_filter 19: Example 24: Running ./tiledb_array_read_sparse_2... 19: a1 19: ---- 19: Reading cells... 19: 5 19: 6 19: Reading cells... 19: 7 19: Example 24: Done running ./tiledb_array_read_sparse_2 19: Example 25: Running ./tiledb_array_read_sparse_filter_2... 19: a1 19: ---- 19: Reading cells... 19: 6 19: Reading cells... 19: 7 19: Example 25: Done running ./tiledb_array_read_sparse_filter_2 19: Example 26: Running ./tiledb_array_write_sparse_2... 19: Example 26: Done running ./tiledb_array_write_sparse_2 19: Example 27: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (1, 1) 0 a ( 0.1, 0.2) 19: (1, 2) 1 bb ( 1.1, 1.2) 19: (1, 4) 2 ccc ( 2.1, 2.2) 19: (2, 3) 3 dddd ( 3.1, 3.2) 19: (3, 1) 4 e ( 4.1, 4.2) 19: (4, 2) 5 ff ( 5.1, 5.2) 19: (3, 3) 6 ggg ( 6.1, 6.2) 19: (3, 4) 7 hhhh ( 7.1, 7.2) 19: Example 27: Done running ./tiledb_array_read_sparse_1 19: Example 28: Running ./tiledb_array_read_sparse_2... 19: a1 19: ---- 19: Reading cells... 19: 5 19: 6 19: Reading cells... 19: 7 19: Example 28: Done running ./tiledb_array_read_sparse_2 19: Example 29: Running ./tiledb_array_read_sparse_filter_2... 19: a1 19: ---- 19: Reading cells... 19: 6 19: Reading cells... 19: 7 19: Example 29: Done running ./tiledb_array_read_sparse_filter_2 19: Example 30: Running ./tiledb_array_update_sparse_1... 19: Example 30: Done running ./tiledb_array_update_sparse_1 19: Example 31: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (1, 1) 0 a ( 0.1, 0.2) 19: (1, 2) 1 bb ( 1.1, 1.2) 19: (1, 4) 2 ccc ( 2.1, 2.2) 19: (2, 3) 3 dddd ( 3.1, 3.2) 19: (3, 1) 4 e ( 4.1, 4.2) 19: (3, 2) 104 u (104.1, 104.2) 19: (4, 1) 105 vvvv (105.1, 105.2) 19: (4, 2) 5 ff ( 5.1, 5.2) 19: (3, 3) 106 w (106.1, 106.2) 19: (3, 4) 107 yyy (107.1, 107.2) 19: Example 31: Done running ./tiledb_array_read_sparse_1 19: Example 32: Running ./tiledb_array_read_sparse_filter_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (4, 1) 105 vvvv (105.1, 105.2) 19: Example 32: Done running ./tiledb_array_read_sparse_filter_1 19: Example 33: Running ./tiledb_array_read_sparse_filter_2... 19: a1 19: ---- 19: Reading cells... 19: Reading cells... 19: 106 19: 107 19: Example 33: Done running ./tiledb_array_read_sparse_filter_2 19: Example 34: Running ./tiledb_array_iterator_sparse... 19: a1 19: ---- 19: 104 19: 5 19: 106 19: 107 19: Example 34: Done running ./tiledb_array_iterator_sparse 19: Example 35: Running ./tiledb_array_iterator_sparse_filter... 19: a1 19: ---- 19: 104 19: 106 19: 107 19: Example 35: Done running ./tiledb_array_iterator_sparse_filter 19: Example 36: Running ./tiledb_array_read_sparse_2... 19: a1 19: ---- 19: Reading cells... 19: 104 19: 5 19: Reading cells... 19: 106 19: 107 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 19: Example 38: 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: 208 u (208.1, 208.2) 19: 9 jj ( 9.1, 9.2) 19: 10 kkk ( 10.1, 10.2) 19: 211 wwww (211.1, 211.2) 19: 212 x (212.1, 212.2) 19: 213 yy (213.1, 213.2) 19: 114 OOO (114.1, 114.2) 19: 115 PPPP (115.1, 115.2) 19: Example 38: Done running ./tiledb_array_read_dense_1 19: Example 39: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (1, 1) 0 a ( 0.1, 0.2) 19: (1, 2) 1 bb ( 1.1, 1.2) 19: (1, 4) 2 ccc ( 2.1, 2.2) 19: (2, 3) 3 dddd ( 3.1, 3.2) 19: (3, 1) 4 e ( 4.1, 4.2) 19: (3, 2) 104 u (104.1, 104.2) 19: (4, 1) 105 vvvv (105.1, 105.2) 19: (4, 2) 5 ff ( 5.1, 5.2) 19: (3, 3) 106 w (106.1, 106.2) 19: (3, 4) 107 yyy (107.1, 107.2) 19: Example 39: Done running ./tiledb_array_read_sparse_1 19: Example 40: Running ./tiledb_array_read_dense_2... 19: a1 19: ---- 19: Reading cells... 19: 9 19: 211 19: 212 19: Reading cells... 19: 213 19: 114 19: 115 19: Example 40: Done running ./tiledb_array_read_dense_2 19: Example 41: Running ./tiledb_array_read_sparse_2... 19: a1 19: ---- 19: Reading cells... 19: 104 19: 5 19: Reading cells... 19: 106 19: 107 19: Example 41: Done running ./tiledb_array_read_sparse_2 19: Example 42: Running ./tiledb_array_3d... 19: 4 results 19: coords a1 a2 19: ----------------------- 19: 0, 0, 0 0 first 19: 0, 0, 1 1 second 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 57.81 sec 100% tests passed, 0 tests failed out of 22 Total Test time (real) = 57.84 sec make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' debian/rules override_dh_auto_test-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_build cd obj-x86_64-linux-gnu && make -j40 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/depend make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/depend make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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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-1.5.5/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_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/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/uri.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/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_fs.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target genomicsdb-hts [ 0%] Built target protobuf_ep make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/depend make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/resources /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources 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Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_shared Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". 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/genomicsdb/variant_field_handler.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". 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/loader/genomicsdb_importer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". 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Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". [ 25%] Built target tiledb_static Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/depend [ 26%] Built target tiledb_shared 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 make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make 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/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu 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Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu 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"--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" make -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 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Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/compiler_depend.internal". make -f genomicsdb-tiledb/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_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" make -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/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_print_book_keeping Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" 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-1.5.5/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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.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 Consolidate compiler generated dependencies of target test_sparse_array_benchmark Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_print_array_schema Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_sparse_array_api Consolidate compiler generated dependencies of target test_dense_array_api Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_array_iterator make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target test_expressions make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_array_schema make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build Consolidate compiler generated dependencies of target test_tiledb_utils make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_codec 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 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_array_schema_api Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_filter_api Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_mem_utils Consolidate compiler generated dependencies of target test_uri Consolidate compiler generated dependencies of target test_utils 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-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". 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_create_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_aio_write_dense Consolidate compiler generated dependencies of target tiledb_array_consolidate make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_3d make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build Consolidate compiler generated dependencies of target tiledb_array_aio_read_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_codec_filter make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_create_dense Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_posixfs 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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". make -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_consolidate_dense Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse_filter make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.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-1.5.5/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-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build'. Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_parallel_read_mpi_io_dense Consolidate compiler generated dependencies of target tiledb_array_create_sparse Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_iterator_dense Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_sparse make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build'. Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build'. Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build'. Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_primitive make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 27%] Built target test_array_iterator [ 27%] Built target test_expressions [ 27%] Built target test_print_book_keeping [ 28%] Built target test_sparse_array_benchmark [ 29%] Built target test_print_array_schema [ 30%] Built target test_tiledb_utils [ 31%] Built target test_dense_array_api [ 31%] Built target test_array_schema [ 32%] Built target test_codec [ 32%] Built target test_mem_utils [ 32%] Built target test_uri [ 33%] Built target test_sparse_array_api [ 33%] Built target test_codec_filter [ 34%] Built target test_filter_api 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 [ 35%] Built target test_array_schema_api 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_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/depend [ 35%] Built target tiledb_array_aio_read_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" [ 36%] Built target test_utils 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 [ 37%] Built target tiledb_array_consolidate make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" [ 38%] Built target tiledb_array_3d make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" [ 39%] Built target tiledb_array_aio_write_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" [ 39%] Built target tiledb_array_create_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" make -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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend [ 40%] Built target tiledb_array_parallel_consolidate_dense [ 40%] Built target tiledb_array_iterator_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" 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 [ 41%] Built target tiledb_array_iterator_sparse_filter make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" [ 42%] Built target tiledb_array_parallel_read_mpi_io_dense [ 42%] Built target test_storage_buffer make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" [ 43%] Built target tiledb_array_parallel_read_dense_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_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 [ 44%] Built target tiledb_array_create_sparse 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 Consolidate compiler generated dependencies of target GenomicsDB_library_object_files [ 45%] Built target tiledb_array_parallel_write_dense_2 [ 45%] Built target tiledb_array_parallel_read_sparse_1 [ 45%] Built target test_posixfs [ 46%] Built target tiledb_array_parallel_consolidate_sparse [ 46%] Built target tiledb_array_parallel_read_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" [ 46%] Built target tiledb_array_iterator_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" [ 47%] Built target tiledb_array_parallel_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend [ 48%] Built target tiledb_array_parallel_write_dense_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend [ 48%] Built target tiledb_array_parallel_write_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" [ 49%] Built target tiledb_array_parallel_write_sparse_1 [ 50%] Built target tiledb_array_primitive make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.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_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" 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_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target tiledb_array_read_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_dense_3 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_dense_sorted Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_1 Consolidate compiler generated dependencies of target tiledb_array_read_sparse_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_sparse_sorted 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 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_sparse_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". 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 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_write_dense_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_update_dense_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_update_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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build Consolidate compiler generated dependencies of target tiledb_array_update_sparse_1 Consolidate compiler generated dependencies of target tiledb_array_update_sparse_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build Consolidate compiler generated dependencies of target tiledb_array_write_dense_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_write_sparse_1 Consolidate compiler generated dependencies of target tiledb_array_write_dense_sorted make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build Consolidate compiler generated dependencies of target tiledb_array_write_sparse_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_clear_delete_move make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_write_sparse_4 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_write_sparse_3 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". 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_config.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". 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 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". 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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_catching_errors Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". 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 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". make -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_metadata_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_config make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_ls Consolidate compiler generated dependencies of target tiledb_metadata_iterator make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build Consolidate compiler generated dependencies of target tiledb_delete Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_metadata_consolidate make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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_update.dir/src/tiledb_metadata_update.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". 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_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_ls_workspaces Consolidate compiler generated dependencies of target tiledb_metadata_create 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_metadata_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_metadata_write make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_metadata_read Consolidate compiler generated dependencies of target tiledb_metadata_update make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.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-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_metadata_primitive Consolidate compiler generated dependencies of target tiledb_workspace_group_create make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 50%] Built target tiledb_array_read_sparse_filter_1 [ 52%] Built target tiledb_array_read_dense_sorted [ 52%] Built target tiledb_array_read_sparse_1 [ 52%] Built target tiledb_array_read_dense_1 [ 67%] Built target GenomicsDB_library_object_files [ 68%] Built target tiledb_array_read_dense_3 [ 69%] Built target tiledb_array_update_dense_2 [ 69%] Built target tiledb_array_update_dense_1 make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/depend [ 69%] Built target tiledb_array_read_dense_2 make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/depend [ 70%] Built target tiledb_array_read_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" [ 71%] Built target tiledb_array_read_sparse_sorted make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" [ 72%] Built target tiledb_array_read_sparse_filter_2 [ 72%] Built target tiledb_array_write_sparse_2 [ 73%] Built target tiledb_array_write_sparse_1 [ 73%] Built target tiledb_array_write_dense_2 [ 74%] Built target tiledb_array_write_dense_1 [ 75%] Built target tiledb_array_update_sparse_2 [ 75%] Built target tiledb_array_update_sparse_1 [ 76%] Built target tiledb_array_write_dense_sorted [ 77%] Built target tiledb_array_write_sparse_3 [ 78%] Built target tiledb_clear_delete_move [ 80%] Built target tiledb_metadata_iterator [ 80%] Built target tiledb_metadata_consolidate [ 80%] Built target tiledb_metadata_write [ 80%] Built target tiledb_ls_workspaces [ 80%] Built target tiledb_array_write_sparse_4 [ 82%] Built target tiledb_metadata_update [ 82%] Built target tiledb_catching_errors [ 83%] Built target tiledb_ls [ 83%] Built target tiledb_config [ 83%] Built target tiledb_metadata_create [ 84%] Built target tiledb_delete [ 84%] Built target tiledb_metadata_read [ 85%] Built target tiledb_workspace_group_create [ 86%] Built target tiledb_metadata_primitive Dependencies file "src/main/CMakeFiles/tiledbgenomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledbgenomicsdb make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/tiledbgenomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target genomicsdb 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 [ 86%] Built target tiledbgenomicsdb make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/depend make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/depend make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.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-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.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-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb_init.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcfdiff.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf_histogram.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target create_genomicsdb_workspace Dependencies file "tools/CMakeFiles/gt_mpi_gather.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "example/CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/compiler_depend.internal". Dependencies file "example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "example/CMakeFiles/test_genomicsdb_importer.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/build Consolidate compiler generated dependencies of target consolidate_genomicsdb_array Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target vcf2genomicsdb Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_genomicsdb_demo Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target vcf_histogram Consolidate compiler generated dependencies of target vcfdiff Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target vcf2genomicsdb_init Consolidate compiler generated dependencies of target test_genomicsdb_bcf_generator Consolidate compiler generated dependencies of target api_tests make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/build 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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target gt_mpi_gather make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/build Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_genomicsdb_importer make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/create_genomicsdb_workspace.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/build Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/build make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/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 -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/consolidate_genomicsdb_array.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcfdiff.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf_histogram.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb_init.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/gt_mpi_gather.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target genomicsdbjni make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/api_tests.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_importer.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdbjni.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target create_genomicsdb_workspace [ 87%] Built target consolidate_genomicsdb_array [ 88%] Built target vcf2genomicsdb [ 88%] Built target test_genomicsdb_demo [ 89%] Built target vcfdiff [ 90%] Built target vcf_histogram [ 90%] Built target vcf2genomicsdb_init [ 91%] Built target test_genomicsdb_bcf_generator [ 92%] Built target api_tests [ 93%] Built target gt_mpi_gather [ 94%] Built target test_genomicsdb_importer Consolidate compiler generated dependencies of target ctests make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build [ 95%] Built target genomicsdbjni make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/ctests.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [100%] Built target ctests make[3]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' # Testing the Java part. We extend LD_LIBRARY_PATH because some test code is # run without surefire. LD_LIBRARY_PATH=":obj-x86_64-linux-gnu/src/main" dh_auto_test --buildsystem=maven /usr/lib/jvm/default-java/bin/java -noverify -cp /usr/share/maven/boot/plexus-classworlds-2.x.jar -Dmaven.home=/usr/share/maven -Dmaven.multiModuleProjectDirectory=/build/reproducible-path/genomicsdb-1.5.5 -Dclassworlds.conf=/etc/maven/m2-debian.conf -Dproperties.file.manual=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.properties org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.5/debian -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo --batch-mode test OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release. [INFO] Scanning for projects... [INFO] [INFO] ---------------------< org.genomicsdb:genomicsdb >---------------------- [INFO] Building org.genomicsdb:genomicsdb 1.5.5 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [WARNING] The artifact com.googlecode.json-simple:json-simple:jar:debian has been relocated to com.github.cliftonlabs:json-simple:jar:debian [INFO] [INFO] --- antrun:3.1.0:run (exec-protoc) @ genomicsdb --- [INFO] Executing tasks [INFO] Executed tasks [INFO] [INFO] --- build-helper:3.3.0:add-source (add-source) @ genomicsdb --- [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/src/main/scala added. [INFO] [INFO] --- resources:3.3.1:resources (default-resources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.5/src/main/resources [INFO] [INFO] --- compiler:3.13.0:compile (default-compile) @ genomicsdb --- [INFO] Recompiling the module because of changed source code. [INFO] Compiling 30 source files with javac [debug target 17] to build/classes [WARNING] system modules path not set in conjunction with -source 17 [INFO] Annotation processing is enabled because one or more processors were found on the class path. A future release of javac may disable annotation processing unless at least one processor is specified by name (-processor), or a search path is specified (--processor-path, --processor-module-path), or annotation processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBVidMapProto.java:[93,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBTimer.java:[37,14] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/ImportConfig.java:[76,36] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[177,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2228,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2269,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[792,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3035,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3987,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBCallsetsMapProto.java:[139,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/exception/GenomicsDBException.java:[28,8] serializable class org.genomicsdb.exception.GenomicsDBException has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,50] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[160,28] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[333,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[333,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[334,9] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[334,30] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[336,9] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[336,41] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[338,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[338,36] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[342,17] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[342,40] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[462,17] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[462,45] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[483,9] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[483,41] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[690,94] found raw type: java.util.concurrent.CompletableFuture missing type arguments for generic class java.util.concurrent.CompletableFuture [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[224,46] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[99,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[109,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[50,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.Pair has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[70,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.VariantCall has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[76,25] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[110,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.Interval has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[112,23] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[483,84] PARSER in org.genomicsdb.model.Coordinates.GenomicsDBColumnOrInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[5485,72] PARSER in org.genomicsdb.model.Coordinates.ContigInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[4407,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[10171,72] PARSER in org.genomicsdb.model.Coordinates.ContigInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7553,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7594,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7635,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[54,27] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[139,58] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[79,39] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[206,31] previous possible 'this' escape happens here via invocation [INFO] [INFO] --- antrun:3.1.0:run (copy-native-libs) @ genomicsdb --- [INFO] Executing tasks [WARNING] [exec] The command attribute is deprecated. [exec] Please use the executable attribute and nested arg elements. [INFO] [exec] cp: cannot stat '/build/reproducible-path/genomicsdb-1.5.5/build/src/main/libtiledbgenomicsdb.dylib': No such file or directory [INFO] [exec] Result: 1 [WARNING] [exec] The command attribute is deprecated. [exec] Please use the executable attribute and nested arg elements. [INFO] [exec] cp: cannot stat '/build/reproducible-path/genomicsdb-1.5.5/build/src/main/libtiledbgenomicsdb.so': No such file or directory [INFO] [exec] Result: 1 [INFO] Executed tasks [INFO] [INFO] --- resources:3.3.1:testResources (default-testResources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.5/src/test/resources [INFO] [INFO] --- antrun:3.1.0:run (unzip-test-artifacts) @ genomicsdb --- [INFO] Executing tasks [INFO] [untar] Expanding: /build/reproducible-path/genomicsdb-1.5.5/build/test/test.tar into /build/reproducible-path/genomicsdb-1.5.5/build/test [INFO] Executed tasks [INFO] [INFO] --- compiler:3.13.0:testCompile (default-testCompile) @ genomicsdb --- [INFO] Recompiling the module because of changed dependency. [INFO] Compiling 12 source files with javac [debug target 17] to build/test-classes [WARNING] system modules path not set in conjunction with -source 17 [INFO] Annotation processing is enabled because one or more processors were found on the class path. A future release of javac may disable annotation processing unless at least one processor is specified by name (-processor), or a search path is specified (--processor-path, --processor-module-path), or annotation processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] No processor claimed any of these annotations: /org.testng.annotations.BeforeClass,/org.testng.annotations.Test,/org.testng.annotations.DataProvider,/org.testng.annotations.BeforeMethod,/org.testng.annotations.AfterMethod [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,38] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[176,13] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[176,39] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[181,17] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[181,44] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[201,18] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[257,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[289,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[322,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[362,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[398,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[443,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[482,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[536,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [INFO] [INFO] --- surefire:2.22.3:test (default-test) @ genomicsdb --- [INFO] [INFO] ------------------------------------------------------- [INFO] T E S T S [INFO] ------------------------------------------------------- [INFO] Running TestSuite 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),0.0032692619999999998,Cpu time(s),0.003283516 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.0013322490000000002,Cpu time(s),0.001441302 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),6.022E-4,Cpu time(s),7.00428E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.63661E-4,Cpu time(s),4.4376400000000003E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.99684E-4,Cpu time(s),4.72084E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),2.61366E-4,Cpu time(s),2.69077E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),2.4558E-4,Cpu time(s),2.20819E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.0622E-4,Cpu time(s),3.74968E-4 [INFO] Tests run: 46, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.065 s - in TestSuite [INFO] [INFO] Results: [INFO] [INFO] Tests run: 46, Failures: 0, Errors: 0, Skipped: 0 [INFO] [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 40.775 s [INFO] Finished at: 2025-10-30T22:44:51-12:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake dh_prep -O--buildsystem=cmake debian/rules override_dh_auto_install-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Installing the Java part. dh_auto_install --buildsystem=maven /usr/lib/jvm/default-java/bin/java -noverify -cp /usr/share/maven/boot/plexus-classworlds-2.x.jar -Dmaven.home=/usr/share/maven -Dmaven.multiModuleProjectDirectory=/build/reproducible-path/genomicsdb-1.5.5 -Dclassworlds.conf=/etc/maven/m2-debian.conf -Dproperties.file.manual=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.properties org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.5/debian -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo --batch-mode -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.5/debian -Ddebian.package=libgenomicsdb-java -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo -Dinstall.to.usj=true org.debian.maven:debian-maven-plugin:2.6:install OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release. [INFO] Scanning for projects... [INFO] [INFO] ---------------------< org.genomicsdb:genomicsdb >---------------------- [INFO] Building org.genomicsdb:genomicsdb 1.5.5 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- debian:2.6:install (default-cli) @ genomicsdb --- [INFO] Cleaning pom file: /build/reproducible-path/genomicsdb-1.5.5/pom.xml.save with options: [INFO] --keep-pom-version --package=libgenomicsdb-java [INFO] --rules=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.rules [INFO] --ignore-rules=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.ignoreRules [INFO] --published-rules=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.publishedRules [INFO] Install jar for genomicsdb into /usr/share/java [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 0.438 s [INFO] Finished at: 2025-10-30T22:44:53-12:00 [INFO] ------------------------------------------------------------------------ mh_resolve_dependencies --non-interactive --offline --build -plibgenomicsdb-java --base-directory=/build/reproducible-path/genomicsdb-1.5.5 --non-explore Analysing pom.xml... mh_unpatchpoms -plibgenomicsdb-java make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_install -O--buildsystem=cmake -Nlibgenomicsdb-java cd obj-x86_64-linux-gnu && make -j40 install DESTDIR=/build/reproducible-path/genomicsdb-1.5.5/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-hts.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/klist.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hfile.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/khash.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/synced_bcf_reader.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kseq.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kbitset.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/knetfile.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kroundup.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcfutils.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_defs.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/tbx.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kfunc.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/cram.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/faidx.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_log.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/sam.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_endian.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kstring.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf_sweep.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/regidx.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/bgzf.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/ksort.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_os.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/khash_str2int.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/thread_pool.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-tiledb.a -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-tiledb.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb_constants.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb_storage.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb_utils.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.a -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.so.1.5.4 -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.so.1 -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.so.1.5.4" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb_exception.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb_status.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb_utils.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/genomicsdb.pc -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_demo -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_demo" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/create_genomicsdb_workspace -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/create_genomicsdb_workspace" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf2genomicsdb_init -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf2genomicsdb_init" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf2genomicsdb -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf2genomicsdb" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/consolidate_genomicsdb_array -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/consolidate_genomicsdb_array" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/gt_mpi_gather -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/gt_mpi_gather" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcfdiff -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcfdiff" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf_histogram -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf_histogram" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_bcf_generator -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_bcf_generator" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_importer -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_importer" to "/usr/lib/x86_64-linux-gnu/genomicsdb" make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' dh_install -O--buildsystem=cmake debian/rules execute_after_dh_install-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Setting the runpath of the jni library to only contain the path to the private libs. chrpath -r "/usr/lib/x86_64-linux-gnu/genomicsdb" /build/reproducible-path/genomicsdb-1.5.5/debian/libgenomicsdb-jni/usr/lib/jni/libgenomicsdbjni.so /build/reproducible-path/genomicsdb-1.5.5/debian/libgenomicsdb-jni/usr/lib/jni/libgenomicsdbjni.so: RUNPATH=/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/debian/libgenomicsdb-jni/usr/lib/jni/libgenomicsdbjni.so: new RUNPATH: /usr/lib/x86_64-linux-gnu/genomicsdb make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_installjavadoc -O--buildsystem=cmake Duplicate specification "A" for option "A" dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake dh_installexamples -O--buildsystem=cmake dh_installman -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_lintian -O--buildsystem=cmake dh_perl -O--buildsystem=cmake dh_link -O--buildsystem=cmake jh_installlibs -O--buildsystem=cmake jh_classpath -O--buildsystem=cmake Duplicate specification "version|V" for option "V" jh_manifest -O--buildsystem=cmake Duplicate specification "V:s" for option "V" jh_exec -O--buildsystem=cmake jh_depends -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake dh_fixperms -O--buildsystem=cmake dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dwz: debian/libgenomicsdb1/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-hts.so: DWARF compression not beneficial - old size 855098 new size 870650 dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-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 log: 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: 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_1.5.5-2_all.deb'. dpkg-deb: building package 'libgenomicsdb-jni-dbgsym' in '../libgenomicsdb-jni-dbgsym_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb-jni' in '../libgenomicsdb-jni_1.5.5-2_amd64.deb'. dpkg-deb: building package 'genomicsdb-tools' in '../genomicsdb-tools_1.5.5-2_amd64.deb'. dpkg-deb: building package 'genomicsdb-tools-dbgsym' in '../genomicsdb-tools-dbgsym_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb1' in '../libgenomicsdb1_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb1-dbgsym' in '../libgenomicsdb1-dbgsym_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb-dev' in '../libgenomicsdb-dev_1.5.5-2_amd64.deb'. dpkg-genbuildinfo --build=binary -O../genomicsdb_1.5.5-2_amd64.buildinfo dpkg-genchanges --build=binary -O../genomicsdb_1.5.5-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration 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/4101407 and its subdirectories I: Current time: Thu Oct 30 22:46:12 -12 2025 I: pbuilder-time-stamp: 1761907572 Fri Oct 31 10:46:14 UTC 2025 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Fri Oct 31 10:46:14 UTC 2025 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Fri Oct 31 10:46:14 UTC 2025 - checking /var/lib/jenkins/offline_nodes if ionos15-amd64.debian.net is marked as down. Fri Oct 31 10:46:14 UTC 2025 - checking via ssh if ionos15-amd64.debian.net is up. removed '/tmp/read-only-fs-test-QN6WBy' ==================================================================================== Thu Dec 3 17:09:14 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on ionos15-amd64, called using "2 genomicsdb forky /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz 1.5.5-2" as arguments. Thu Dec 3 17:09:14 UTC 2026 - actually running "reproducible_build.sh" (md5sum cc591790ab2c8e13f5e554202b95c89c) as "/tmp/jenkins-script-IytUFz2o" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Thu Dec 3 17:09:14 UTC 2026 I: Downloading source for forky/genomicsdb=1.5.5-2 Reading package lists... NOTICE: 'genomicsdb' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/genomicsdb.git Please use: git clone https://salsa.debian.org/med-team/genomicsdb.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 9265 kB of source archives. Get:1 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (dsc) [3397 B] Get:2 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (tar) [1515 kB] Get:3 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (tar) [951 kB] Get:4 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (tar) [6766 kB] Get:5 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (diff) [29.3 kB] Fetched 9265 kB in 0s (82.0 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'genomicsdb' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/genomicsdb.git Please use: git clone https://salsa.debian.org/med-team/genomicsdb.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 9265 kB of source archives. Get:1 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (dsc) [3397 B] Get:2 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (tar) [1515 kB] Get:3 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (tar) [951 kB] Get:4 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (tar) [6766 kB] Get:5 http://deb.debian.org/debian forky/main genomicsdb 1.5.5-2 (diff) [29.3 kB] Fetched 9265 kB in 0s (82.0 MB/s) Download complete and in download only mode ============================================================================= Re-Building genomicsdb in forky on amd64 on ionos15-amd64 now. Date: Thu Dec 3 17:09:15 UTC 2026 Date UTC: Thu Dec 3 17:09:15 UTC 2026 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/pbuilderrc_OquW + case ${ARCH} in + case $ARCH in + locale=et_EE + language=et + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' genomicsdb = debian-installer -o genomicsdb = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' genomicsdb = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo 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.WjSuggWz/pbuilderrc_OquW --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b2 --logfile b2/build.log genomicsdb_1.5.5-2.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Fri Dec 4 07:09:15 +14 2026 I: pbuilder-time-stamp: 1796317755 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [genomicsdb_1.5.5-2.dsc] I: copying [./genomicsdb_1.5.5.orig-genomicsdb-htslib.tar.gz] I: copying [./genomicsdb_1.5.5.orig-genomicsdb-tiledb.tar.gz] I: copying [./genomicsdb_1.5.5.orig.tar.gz] I: copying [./genomicsdb_1.5.5-2.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./genomicsdb_1.5.5-2.dsc: no acceptable signature found dpkg-source: info: extracting genomicsdb in genomicsdb-1.5.5 dpkg-source: info: unpacking genomicsdb_1.5.5.orig.tar.gz dpkg-source: info: unpacking genomicsdb_1.5.5.orig-genomicsdb-htslib.tar.gz dpkg-source: info: unpacking genomicsdb_1.5.5.orig-genomicsdb-tiledb.tar.gz dpkg-source: info: unpacking genomicsdb_1.5.5-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying no_download_of_dependencies.patch dpkg-source: info: applying using_htslib_from_component.patch dpkg-source: info: applying using_timedb_from_component.patch dpkg-source: info: applying strip_tiledb_CMakeLists.patch dpkg-source: info: applying ignoring_sdk_to_download.patch dpkg-source: info: applying use_shared_protobuf_lib.patch dpkg-source: info: applying missing_links_in_libs.patch dpkg-source: info: applying pom.patch dpkg-source: info: applying no_spark_in_Java_build.patch dpkg-source: info: applying tests_in_all_target.patch dpkg-source: info: applying run_tests_in_not_yet_installed_dir.patch dpkg-source: info: applying build_jni.patch dpkg-source: info: applying library_names_and_install_paths.patch dpkg-source: info: applying htslib_define_PATH_MAX.patch dpkg-source: info: applying htslib_testShebang.patch dpkg-source: info: applying htslib_fix_float_precision dpkg-source: info: applying handling_rpaths.patch dpkg-source: info: applying disabling_mpi_for_tests.patch dpkg-source: info: applying JsonFormat_from_libprotobuf-java.patch dpkg-source: info: applying gcc-13.patch dpkg-source: info: applying catch2_3.patch dpkg-source: info: applying variant_array_schema_hidden_if_no_DEBUG.patch dpkg-source: info: applying rapidjson_methods.patch dpkg-source: info: applying query_config_serialization.patch dpkg-source: info: applying fmt10.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/25376/tmp/hooks/D01_modify_environment starting debug: Running on ionos15-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 Dec 3 17:09 /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/25376/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/25376/tmp/hooks/D02_print_environment starting I: set 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]="3" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") BASH_VERSION='5.3.3(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=42 ' DIRSTACK=() DISTRIBUTION=forky EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=x86_64 HOST_ARCH=amd64 IFS=' ' INVOCATION_ID=4c746f87e9be44a0ac3b5098db817aa9 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=25376 PS4='+ ' 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.WjSuggWz/pbuilderrc_OquW --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b2 --logfile b2/build.log genomicsdb_1.5.5-2.dsc' SUDO_GID=111 SUDO_HOME=/var/lib/jenkins SUDO_UID=106 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://213.165.73.152:3128 I: uname -a Linux i-capture-the-hostname 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/25376/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cmake, default-jdk, javahelper, libbz2-dev, libcatch2-dev, libcurlpp-dev, libfmt-dev, libmuparserx-dev, libprotobuf-dev, libspdlog-dev, libssl-dev, liblzma-dev, maven-debian-helper, mpi-default-dev, protobuf-compiler, rapidjson-dev, testng, uuid-dev, libbuild-helper-maven-plugin-java, libcommons-io-java, libcommons-lang3-java, libgetopt-java, libguava-java, libhtsjdk-java, libjson-simple-java, liblog4j2-java, libmaven-antrun-plugin-java, libprotobuf-java, libsurefire-java, chrpath dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19869 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on default-jdk; however: Package default-jdk is not installed. pbuilder-satisfydepends-dummy depends on javahelper; however: Package javahelper is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on libcatch2-dev; however: Package libcatch2-dev is not installed. pbuilder-satisfydepends-dummy depends on libcurlpp-dev; however: Package libcurlpp-dev is not installed. pbuilder-satisfydepends-dummy depends on libfmt-dev; however: Package libfmt-dev is not installed. pbuilder-satisfydepends-dummy depends on libmuparserx-dev; however: Package libmuparserx-dev is not installed. pbuilder-satisfydepends-dummy depends on libprotobuf-dev; however: Package libprotobuf-dev is not installed. pbuilder-satisfydepends-dummy depends on libspdlog-dev; however: Package libspdlog-dev is not installed. pbuilder-satisfydepends-dummy depends on libssl-dev; however: Package libssl-dev is not installed. pbuilder-satisfydepends-dummy depends on liblzma-dev; however: Package liblzma-dev is not installed. pbuilder-satisfydepends-dummy depends on maven-debian-helper; however: Package maven-debian-helper is not installed. pbuilder-satisfydepends-dummy depends on mpi-default-dev; however: Package mpi-default-dev is not installed. pbuilder-satisfydepends-dummy depends on protobuf-compiler; however: Package protobuf-compiler is not installed. pbuilder-satisfydepends-dummy depends on rapidjson-dev; however: Package rapidjson-dev is not installed. pbuilder-satisfydepends-dummy depends on testng; however: Package testng is not installed. pbuilder-satisfydepends-dummy depends on uuid-dev; however: Package uuid-dev is not installed. pbuilder-satisfydepends-dummy depends on libbuild-helper-maven-plugin-java; however: Package libbuild-helper-maven-plugin-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-io-java; however: Package libcommons-io-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-lang3-java; however: Package libcommons-lang3-java is not installed. pbuilder-satisfydepends-dummy depends on libgetopt-java; however: Package libgetopt-java is not installed. pbuilder-satisfydepends-dummy depends on libguava-java; however: Package libguava-java is not installed. pbuilder-satisfydepends-dummy depends on libhtsjdk-java; however: Package libhtsjdk-java is not installed. pbuilder-satisfydepends-dummy depends on libjson-simple-java; however: Package libjson-simple-java is not installed. pbuilder-satisfydepends-dummy depends on liblog4j2-java; however: Package liblog4j2-java is not installed. pbuilder-satisfydepends-dummy depends on libmaven-antrun-plugin-java; however: Package libmaven-antrun-plugin-java is not installed. pbuilder-satisfydepends-dummy depends on libprotobuf-java; however: Package libprotobuf-java is not installed. pbuilder-satisfydepends-dummy depends on libsurefire-java; however: Package libsurefire-java is not installed. pbuilder-satisfydepends-dummy depends on chrpath; however: Package chrpath is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: adwaita-icon-theme{a} ant{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} binfmt-support{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} chrpath{a} cmake{a} cmake-data{a} comerr-dev{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} fastjar{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} gfortran-15{a} gfortran-15-x86-64-linux-gnu{a} gpg{a} gpg-agent{a} gpgconf{a} groff-base{a} gtk-update-icon-cache{a} hicolor-icon-theme{a} ibverbs-providers{a} intltool-debian{a} jarwrapper{a} java-common{a} javahelper{a} junit4{a} junit5{a} krb5-multidev{a} libamd-comgr2{a} libamdhip64-5{a} libaopalliance-java{a} libapache-pom-java{a} libapiguardian-java{a} libapparmor1{a} libarchive-zip-perl{a} libarchive13t64{a} libasm-java{a} libasound2-data{a} libasound2t64{a} libassuan9{a} libatinject-jsr330-api-java{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbrotli-dev{a} libbrotli1{a} libbsh-java{a} libbuild-helper-maven-plugin-java{a} libbz2-dev{a} libcairo-gobject2{a} libcairo2{a} libcatch2-dev{a} libcbor0.10{a} libcdi-api-java{a} libclass-method-modifiers-perl{a} libclass-xsaccessor-perl{a} libclone-perl{a} libcloudproviders0{a} libcolord2{a} libcom-err2{a} libcommons-beanutils-java{a} libcommons-cli-java{a} libcommons-codec-java{a} libcommons-collections3-java{a} libcommons-collections4-java{a} libcommons-compress-java{a} libcommons-digester-java{a} libcommons-io-java{a} libcommons-jexl2-java{a} libcommons-lang-java{a} libcommons-lang3-java{a} libcommons-logging-java{a} libcommons-parent-java{a} libcommons-text-java{a} libcommons-validator-java{a} libcups2t64{a} libcurl4-openssl-dev{a} libcurl4t64{a} libcurlpp-dev{a} libcurlpp0t64{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate0{a} libdevel-callchecker-perl{a} libdom4j-java{a} libdoxia-core-java{a} libdoxia-java{a} libdoxia-sitetools-java{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm2{a} libdynaloader-functions-perl{a} libedit2{a} libel-api-java{a} libelf1t64{a} libencode-locale-perl{a} libepoxy0{a} liberror-prone-java{a} libevent-2.1-7t64{a} libevent-core-2.1-7t64{a} libevent-dev{a} libevent-extra-2.1-7t64{a} libevent-openssl-2.1-7t64{a} libevent-pthreads-2.1-7t64{a} libexpat1{a} libezmorph-java{a} libfabric1{a} libffi8{a} libfido2-1{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libfmt-dev{a} libfmt10{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgbm1{a} libgcrypt20{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgeronimo-annotation-1.3-spec-java{a} libgeronimo-interceptor-3.0-spec-java{a} libgetopt-java{a} libgfortran-15-dev{a} libgfortran5{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglib2.0-0t64{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgoogle-gson-java{a} libgpg-error0{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libgtk-3-0t64{a} libgtk-3-common{a} libguava-java{a} libguice-java{a} libhamcrest-java{a} libharfbuzz0b{a} libhsa-runtime64-1{a} libhsakmt1{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhtsjdk-java{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libhttpclient-java{a} libhttpcore-java{a} libhwloc-dev{a} libhwloc-plugins{a} libhwloc15{a} libibmad5{a} libibumad3{a} libibverbs-dev{a} libibverbs1{a} libidn2-0{a} libidn2-dev{a} libimport-into-perl{a} libio-html-perl{a} libio-socket-ssl-perl{a} libio-string-perl{a} libjansi-java{a} libjaxen-java{a} libjbig0{a} libjcommander-java{a} libjetty9-java{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjson-java{a} libjson-simple-java{a} libjsoncpp26{a} libjsoup-java{a} libjsp-api-java{a} libjsr305-java{a} libjtidy-java{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} libksba8{a} liblcms2-2{a} libldap-dev{a} libldap2{a} liblerc4{a} liblightcouch-java{a} libllvm17t64{a} libllvm19{a} liblog4j2-java{a} libltdl-dev{a} libltdl7{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmaven-antrun-plugin-java{a} libmaven-archiver-java{a} libmaven-clean-plugin-java{a} libmaven-common-artifact-filters-java{a} libmaven-compiler-plugin-java{a} libmaven-file-management-java{a} libmaven-filtering-java{a} libmaven-jar-plugin-java{a} libmaven-parent-java{a} libmaven-plugin-tools-java{a} libmaven-reporting-api-java{a} libmaven-reporting-exec-java{a} libmaven-reporting-impl-java{a} libmaven-resolver-java{a} libmaven-resources-plugin-java{a} libmaven-shared-incremental-java{a} libmaven-shared-io-java{a} libmaven-shared-utils-java{a} libmaven-site-plugin-java{a} libmaven3-core-java{a} libmbedcrypto16{a} libmbedtls21{a} libmbedx509-7{a} libmodule-runtime-perl{a} libmongodb-java{a} libmoo-perl{a} libmunge2{a} libmuparserx-dev{a} libmuparserx4.0.12{a} libncbi-ngs3{a} libncbi-vdb3{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngs-java{a} libngs-jni{a} libngtcp2-16{a} libngtcp2-crypto-ossl-dev{a} libngtcp2-crypto-ossl0{a} libngtcp2-dev{a} libnl-3-200{a} libnl-3-dev{a} libnl-route-3-200{a} libnl-route-3-dev{a} libnpth0t64{a} libnspr4{a} libnss3{a} libnuma-dev{a} libnuma1{a} libopenmpi-dev{a} libopenmpi40{a} libopentest4j-java{a} libopentest4j-reporting-java{a} liboro-java{a} libp11-kit-dev{a} libp11-kit0{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libparams-classify-perl{a} libpciaccess0{a} libpcsclite1{a} libpicocli-java{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libplexus-ant-factory-java{a} libplexus-archiver-java{a} libplexus-bsh-factory-java{a} libplexus-build-api-java{a} libplexus-cipher-java{a} libplexus-classworlds-java{a} libplexus-compiler-java{a} libplexus-component-annotations-java{a} libplexus-container-default-java{a} libplexus-container-default1.5-java{a} libplexus-i18n-java{a} libplexus-interpolation-java{a} libplexus-io-java{a} libplexus-languages-java{a} libplexus-sec-dispatcher-java{a} libplexus-utils2-java{a} libplexus-velocity-java{a} libplexus-xml-java{a} libpmix2t64{a} libpng16-16t64{a} libproc2-0{a} libprotobuf-dev{a} libprotobuf-java{a} libprotobuf-lite32t64{a} libprotobuf32t64{a} libprotoc32t64{a} libpsl-dev{a} libpsl5t64{a} libpsm2-2{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libqdox2-java{a} librdmacm1t64{a} libreadline8t64{a} librhash1{a} librhino-java{a} librole-tiny-perl{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libservlet-api-java{a} libsharpyuv0{a} libsisu-inject-java{a} libsisu-plexus-java{a} libslf4j-java{a} libsnappy-java{a} libsnappy-jni{a} libsnappy1v5{a} libspdlog-dev{a} libspdlog1.15{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libsub-quote-perl{a} libsurefire-java{a} libsystemd-shared{a} libtasn1-6{a} libtasn1-6-dev{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} libucx0{a} libunbound8{a} libunistring5{a} libunivocity-parsers-java{a} liburi-perl{a} libuv1t64{a} libvelocity-tools-java{a} libvulkan1{a} libwagon-file-java{a} libwagon-http-java{a} libwagon-provider-api-java{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwebp7{a} libwebsocket-api-java{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxbean-reflect-java{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxerces2-java{a} libxext6{a} libxfixes3{a} libxi6{a} libxinerama1{a} libxkbcommon0{a} libxml-commons-external-java{a} libxml-commons-resolver1.1-java{a} libxml2-16{a} libxml2-utils{a} libxnvctrl0{a} libxom-java{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxtst6{a} libxxf86vm1{a} libxz-java{a} libz3-4{a} libze1{a} libzstd-dev{a} m4{a} man-db{a} maven{a} maven-debian-helper{a} maven-repo-helper{a} media-types{a} mesa-libgallium{a} mpi-default-dev{a} ncbi-vdb-data{a} netbase{a} nettle-dev{a} ocl-icd-libopencl1{a} openjdk-21-jdk{a} openjdk-21-jdk-headless{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openmpi-bin{a} openmpi-common{a} openssh-client{a} openssl{a} patchutils{a} perl-openssl-defaults{a} pinentry-curses{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} protobuf-compiler{a} python3{a} python3-minimal{a} python3.13{a} python3.13-minimal{a} rapidjson-dev{a} readline-common{a} rsopv{a} sensible-utils{a} sgml-base{a} shared-mime-info{a} systemd{a} systemd-sysv{a} testng{a} tzdata{a} unzip{a} uuid-dev{a} velocity{a} wdiff{a} x11-common{a} xkb-data{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf ant-optional at-spi2-core bzip2-doc chrony curl debian-keyring debian-tag2upload-keyring dput dput-ng dupload equivs fonts-dejavu-extra git-debpush gnupg javascript-common krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libdata-dump-perl libdistro-info-perl libgdk-pixbuf2.0-bin libgitlab-api-v4-perl libglib2.0-data libgpg-error-l10n libgtk-3-bin libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libio-compress-brotli-perl libjson-perl libkmod2 libldap-common libmail-sendmail-perl libmailtools-perl libmetacpan-client-perl libnamespace-clean-perl libnss-systemd librsvg2-common libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libtasn1-doc libxstring-perl libxt-dev libyaml-snake-java licensecheck lintian linux-sysctl-defaults login lynx lzip mesa-vulkan-drivers ntpsec openntpd pristine-tar psmisc publicsuffix python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg strace systemd-cryptsetup systemd-timesyncd wget xauth xdg-user-dirs 0 packages upgraded, 498 newly installed, 0 to remove and 0 not upgraded. Need to get 390 MB of archives. After unpacking 1272 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian forky/main amd64 libsystemd-shared amd64 258.1-2 [2253 kB] Get: 2 http://deb.debian.org/debian forky/main amd64 systemd amd64 258.1-2 [3229 kB] Get: 3 http://deb.debian.org/debian forky/main amd64 systemd-sysv amd64 258.1-2 [63.8 kB] Get: 4 http://deb.debian.org/debian forky/main amd64 libdbus-1-3 amd64 1.16.2-2 [178 kB] Get: 5 http://deb.debian.org/debian forky/main amd64 dbus-bin amd64 1.16.2-2 [80.0 kB] Get: 6 http://deb.debian.org/debian forky/main amd64 dbus-session-bus-common all 1.16.2-2 [52.3 kB] Get: 7 http://deb.debian.org/debian forky/main amd64 libapparmor1 amd64 4.1.0-1 [43.7 kB] Get: 8 http://deb.debian.org/debian forky/main amd64 libexpat1 amd64 2.7.3-1 [112 kB] Get: 9 http://deb.debian.org/debian forky/main amd64 dbus-daemon amd64 1.16.2-2 [159 kB] Get: 10 http://deb.debian.org/debian forky/main amd64 dbus-system-bus-common all 1.16.2-2 [53.5 kB] Get: 11 http://deb.debian.org/debian forky/main amd64 dbus amd64 1.16.2-2 [71.6 kB] Get: 12 http://deb.debian.org/debian forky/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 13 http://deb.debian.org/debian forky/main amd64 binfmt-support amd64 2.2.2-7 [64.3 kB] Get: 14 http://deb.debian.org/debian forky/main amd64 libpython3.13-minimal amd64 3.13.9-1 [865 kB] Get: 15 http://deb.debian.org/debian forky/main amd64 python3.13-minimal amd64 3.13.9-1 [2257 kB] Get: 16 http://deb.debian.org/debian forky/main amd64 python3-minimal amd64 3.13.7-1 [27.2 kB] Get: 17 http://deb.debian.org/debian forky/main amd64 media-types all 14.0.0 [30.8 kB] Get: 18 http://deb.debian.org/debian forky/main amd64 netbase all 6.5 [12.4 kB] Get: 19 http://deb.debian.org/debian forky/main amd64 tzdata all 2025b-5 [260 kB] Get: 20 http://deb.debian.org/debian forky/main amd64 libffi8 amd64 3.5.2-2 [25.5 kB] Get: 21 http://deb.debian.org/debian forky/main amd64 readline-common all 8.3-3 [74.8 kB] Get: 22 http://deb.debian.org/debian forky/main amd64 libreadline8t64 amd64 8.3-3 [191 kB] Get: 23 http://deb.debian.org/debian forky/main amd64 libpython3.13-stdlib amd64 3.13.9-1 [1965 kB] Get: 24 http://deb.debian.org/debian forky/main amd64 python3.13 amd64 3.13.9-1 [764 kB] Get: 25 http://deb.debian.org/debian forky/main amd64 libpython3-stdlib amd64 3.13.7-1 [10.2 kB] Get: 26 http://deb.debian.org/debian forky/main amd64 python3 amd64 3.13.7-1 [28.3 kB] Get: 27 http://deb.debian.org/debian forky/main amd64 libproc2-0 amd64 2:4.0.4-9 [65.6 kB] Get: 28 http://deb.debian.org/debian forky/main amd64 procps amd64 2:4.0.4-9 [882 kB] Get: 29 http://deb.debian.org/debian forky/main amd64 sensible-utils all 0.0.26 [27.0 kB] Get: 30 http://deb.debian.org/debian forky/main amd64 openssl amd64 3.5.4-1 [1496 kB] Get: 31 http://deb.debian.org/debian forky/main amd64 ca-certificates all 20250419 [162 kB] Get: 32 http://deb.debian.org/debian forky/main amd64 libmagic-mgc amd64 1:5.46-5 [338 kB] Get: 33 http://deb.debian.org/debian forky/main amd64 libmagic1t64 amd64 1:5.46-5 [109 kB] Get: 34 http://deb.debian.org/debian forky/main amd64 file amd64 1:5.46-5 [43.6 kB] Get: 35 http://deb.debian.org/debian forky/main amd64 gettext-base amd64 0.23.1-2+b1 [244 kB] Get: 36 http://deb.debian.org/debian forky/main amd64 libuchardet0 amd64 0.0.8-2 [68.5 kB] Get: 37 http://deb.debian.org/debian forky/main amd64 groff-base amd64 1.23.0-9 [1187 kB] Get: 38 http://deb.debian.org/debian forky/main amd64 libpam-systemd amd64 258.1-2 [312 kB] Get: 39 http://deb.debian.org/debian forky/main amd64 bsdextrautils amd64 2.41.2-4 [98.5 kB] Get: 40 http://deb.debian.org/debian forky/main amd64 man-db amd64 2.13.1-1 [1469 kB] Get: 41 http://deb.debian.org/debian forky/main amd64 libedit2 amd64 3.1-20250104-1 [93.8 kB] Get: 42 http://deb.debian.org/debian forky/main amd64 libcbor0.10 amd64 0.10.2-2 [28.3 kB] Get: 43 http://deb.debian.org/debian forky/main amd64 libfido2-1 amd64 1.16.0-2 [78.8 kB] Get: 44 http://deb.debian.org/debian forky/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB] Get: 45 http://deb.debian.org/debian forky/main amd64 libcom-err2 amd64 1.47.2-3+b3 [25.0 kB] Get: 46 http://deb.debian.org/debian forky/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB] Get: 47 http://deb.debian.org/debian forky/main amd64 libkeyutils1 amd64 1.6.3-6 [9456 B] Get: 48 http://deb.debian.org/debian forky/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB] Get: 49 http://deb.debian.org/debian forky/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB] Get: 50 http://deb.debian.org/debian forky/main amd64 openssh-client amd64 1:10.2p1-2 [1031 kB] Get: 51 http://deb.debian.org/debian forky/main amd64 libgdk-pixbuf2.0-common all 2.44.4+dfsg-1 [313 kB] Get: 52 http://deb.debian.org/debian forky/main amd64 libglib2.0-0t64 amd64 2.86.1-1 [1546 kB] Get: 53 http://deb.debian.org/debian forky/main amd64 libxml2-16 amd64 2.14.6+dfsg-0.1 [651 kB] Get: 54 http://deb.debian.org/debian forky/main amd64 shared-mime-info amd64 2.4-5+b3 [758 kB] Get: 55 http://deb.debian.org/debian forky/main amd64 libjpeg62-turbo amd64 1:2.1.5-4 [168 kB] Get: 56 http://deb.debian.org/debian forky/main amd64 libpng16-16t64 amd64 1.6.50-1 [282 kB] Get: 57 http://deb.debian.org/debian forky/main amd64 libdeflate0 amd64 1.23-2 [47.3 kB] Get: 58 http://deb.debian.org/debian forky/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get: 59 http://deb.debian.org/debian forky/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get: 60 http://deb.debian.org/debian forky/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [116 kB] Get: 61 http://deb.debian.org/debian forky/main amd64 libwebp7 amd64 1.5.0-0.1 [318 kB] Get: 62 http://deb.debian.org/debian forky/main amd64 libtiff6 amd64 4.7.1-1 [361 kB] Get: 63 http://deb.debian.org/debian forky/main amd64 libgdk-pixbuf-2.0-0 amd64 2.44.4+dfsg-1 [144 kB] Get: 64 http://deb.debian.org/debian forky/main amd64 gtk-update-icon-cache amd64 4.20.2+ds-2 [53.6 kB] Get: 65 http://deb.debian.org/debian forky/main amd64 hicolor-icon-theme all 0.18-2 [11.8 kB] Get: 66 http://deb.debian.org/debian forky/main amd64 adwaita-icon-theme all 49.0-1 [507 kB] Get: 67 http://deb.debian.org/debian forky/main amd64 ca-certificates-java all 20240118 [11.6 kB] Get: 68 http://deb.debian.org/debian forky/main amd64 java-common all 0.76 [6776 B] Get: 69 http://deb.debian.org/debian forky/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get: 70 http://deb.debian.org/debian forky/main amd64 libnspr4 amd64 2:4.37-1 [111 kB] Get: 71 http://deb.debian.org/debian forky/main amd64 libnss3 amd64 2:3.117-1 [1429 kB] Get: 72 http://deb.debian.org/debian forky/main amd64 libpcsclite1 amd64 2.4.0-1 [55.7 kB] Get: 73 http://deb.debian.org/debian forky/main amd64 openjdk-21-jre-headless amd64 21.0.9+10-1 [41.9 MB] Get: 74 http://deb.debian.org/debian forky/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B] Get: 75 http://deb.debian.org/debian forky/main amd64 ant all 1.10.15-1 [2163 kB] Get: 76 http://deb.debian.org/debian forky/main amd64 at-spi2-common all 2.58.1-1 [173 kB] Get: 77 http://deb.debian.org/debian forky/main amd64 m4 amd64 1.4.20-2 [325 kB] Get: 78 http://deb.debian.org/debian forky/main amd64 autoconf all 2.72-3.1 [494 kB] Get: 79 http://deb.debian.org/debian forky/main amd64 autotools-dev all 20240727.1 [60.2 kB] Get: 80 http://deb.debian.org/debian forky/main amd64 automake all 1:1.18.1-2 [877 kB] Get: 81 http://deb.debian.org/debian forky/main amd64 autopoint all 0.23.1-2 [770 kB] Get: 82 http://deb.debian.org/debian forky/main amd64 chrpath amd64 0.18-1 [13.5 kB] Get: 83 http://deb.debian.org/debian forky/main amd64 cmake-data all 4.1.1+really3.31.6-2 [2268 kB] Get: 84 http://deb.debian.org/debian forky/main amd64 libarchive13t64 amd64 3.7.4-4+b1 [349 kB] Get: 85 http://deb.debian.org/debian forky/main amd64 libnghttp3-9 amd64 1.12.0-1 [68.4 kB] Get: 86 http://deb.debian.org/debian forky/main amd64 libngtcp2-16 amd64 1.16.0-1 [136 kB] Get: 87 http://deb.debian.org/debian forky/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB] Get: 88 http://deb.debian.org/debian forky/main amd64 libunistring5 amd64 1.3-2 [477 kB] Get: 89 http://deb.debian.org/debian forky/main amd64 libidn2-0 amd64 2.3.8-4 [110 kB] Get: 90 http://deb.debian.org/debian forky/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-10 [19.8 kB] Get: 91 http://deb.debian.org/debian forky/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-10 [57.8 kB] Get: 92 http://deb.debian.org/debian forky/main amd64 libldap2 amd64 2.6.10+dfsg-1 [194 kB] Get: 93 http://deb.debian.org/debian forky/main amd64 libnghttp2-14 amd64 1.64.0-1.1+b1 [76.2 kB] Get: 94 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-ossl0 amd64 1.16.0-1 [27.5 kB] Get: 95 http://deb.debian.org/debian forky/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 96 http://deb.debian.org/debian forky/main amd64 libp11-kit0 amd64 0.25.9-2 [443 kB] Get: 97 http://deb.debian.org/debian forky/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB] Get: 98 http://deb.debian.org/debian forky/main amd64 libgnutls30t64 amd64 3.8.10-3 [1493 kB] Get: 99 http://deb.debian.org/debian forky/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-3 [58.3 kB] Get: 100 http://deb.debian.org/debian forky/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 101 http://deb.debian.org/debian forky/main amd64 libcurl4t64 amd64 8.17.0~rc2-1 [408 kB] Get: 102 http://deb.debian.org/debian forky/main amd64 libjsoncpp26 amd64 1.9.6-4 [89.4 kB] Get: 103 http://deb.debian.org/debian forky/main amd64 librhash1 amd64 1.4.6-1 [137 kB] Get: 104 http://deb.debian.org/debian forky/main amd64 libuv1t64 amd64 1.51.0-2 [155 kB] Get: 105 http://deb.debian.org/debian forky/main amd64 cmake amd64 4.1.1+really3.31.6-2 [12.2 MB] Get: 106 http://deb.debian.org/debian forky/main amd64 comerr-dev amd64 2.1-1.47.2-3+b3 [56.7 kB] Get: 107 http://deb.debian.org/debian forky/main amd64 dbus-user-session amd64 1.16.2-2 [52.1 kB] Get: 108 http://deb.debian.org/debian forky/main amd64 libdconf1 amd64 0.49.0-1 [43.6 kB] Get: 109 http://deb.debian.org/debian forky/main amd64 dconf-service amd64 0.49.0-1 [33.7 kB] Get: 110 http://deb.debian.org/debian forky/main amd64 dconf-gsettings-backend amd64 0.49.0-1 [29.8 kB] Get: 111 http://deb.debian.org/debian forky/main amd64 dctrl-tools amd64 2.24-3+b1 [104 kB] Get: 112 http://deb.debian.org/debian forky/main amd64 libdebhelper-perl all 13.28 [92.4 kB] Get: 113 http://deb.debian.org/debian forky/main amd64 libtool all 2.5.4-7 [540 kB] Get: 114 http://deb.debian.org/debian forky/main amd64 dh-autoreconf all 21 [12.2 kB] Get: 115 http://deb.debian.org/debian forky/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 116 http://deb.debian.org/debian forky/main amd64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 117 http://deb.debian.org/debian forky/main amd64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 118 http://deb.debian.org/debian forky/main amd64 libelf1t64 amd64 0.193-3 [192 kB] Get: 119 http://deb.debian.org/debian forky/main amd64 dwz amd64 0.16-2 [108 kB] Get: 120 http://deb.debian.org/debian forky/main amd64 gettext amd64 0.23.1-2+b1 [1680 kB] Get: 121 http://deb.debian.org/debian forky/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 122 http://deb.debian.org/debian forky/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 123 http://deb.debian.org/debian forky/main amd64 debhelper all 13.28 [941 kB] Get: 124 http://deb.debian.org/debian forky/main amd64 libatk1.0-0t64 amd64 2.58.1-1 [53.0 kB] Get: 125 http://deb.debian.org/debian forky/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 126 http://deb.debian.org/debian forky/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB] Get: 127 http://deb.debian.org/debian forky/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 128 http://deb.debian.org/debian forky/main amd64 libx11-data all 2:1.8.12-1 [343 kB] Get: 129 http://deb.debian.org/debian forky/main amd64 libx11-6 amd64 2:1.8.12-1 [815 kB] Get: 130 http://deb.debian.org/debian forky/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB] Get: 131 http://deb.debian.org/debian forky/main amd64 libxi6 amd64 2:1.8.2-1 [78.9 kB] Get: 132 http://deb.debian.org/debian forky/main amd64 libatspi2.0-0t64 amd64 2.58.1-1 [81.8 kB] Get: 133 http://deb.debian.org/debian forky/main amd64 libatk-bridge2.0-0t64 amd64 2.58.1-1 [69.7 kB] Get: 134 http://deb.debian.org/debian forky/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 135 http://deb.debian.org/debian forky/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 136 http://deb.debian.org/debian forky/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 137 http://deb.debian.org/debian forky/main amd64 fontconfig-config amd64 2.15.0-2.4 [318 kB] Get: 138 http://deb.debian.org/debian forky/main amd64 libfontconfig1 amd64 2.15.0-2.4 [401 kB] Get: 139 http://deb.debian.org/debian forky/main amd64 libpixman-1-0 amd64 0.46.4-1 [259 kB] Get: 140 http://deb.debian.org/debian forky/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get: 141 http://deb.debian.org/debian forky/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get: 142 http://deb.debian.org/debian forky/main amd64 libxrender1 amd64 1:0.9.12-1 [27.9 kB] Get: 143 http://deb.debian.org/debian forky/main amd64 libcairo2 amd64 1.18.4-1+b1 [538 kB] Get: 144 http://deb.debian.org/debian forky/main amd64 libcairo-gobject2 amd64 1.18.4-1+b1 [130 kB] Get: 145 http://deb.debian.org/debian forky/main amd64 libcloudproviders0 amd64 0.3.6-3 [32.9 kB] Get: 146 http://deb.debian.org/debian forky/main amd64 libcolord2 amd64 1.4.8-2 [140 kB] Get: 147 http://deb.debian.org/debian forky/main amd64 libavahi-common-data amd64 0.8-17 [112 kB] Get: 148 http://deb.debian.org/debian forky/main amd64 libavahi-common3 amd64 0.8-17 [47.3 kB] Get: 149 http://deb.debian.org/debian forky/main amd64 libavahi-client3 amd64 0.8-17 [52.1 kB] Get: 150 http://deb.debian.org/debian forky/main amd64 libcups2t64 amd64 2.4.14-1 [255 kB] Get: 151 http://deb.debian.org/debian forky/main amd64 libepoxy0 amd64 1.5.10-2 [193 kB] Get: 152 http://deb.debian.org/debian forky/main amd64 libfribidi0 amd64 1.0.16-3 [26.6 kB] Get: 153 http://deb.debian.org/debian forky/main amd64 libgraphite2-3 amd64 1.3.14-11 [76.7 kB] Get: 154 http://deb.debian.org/debian forky/main amd64 libharfbuzz0b amd64 12.1.0-1 [530 kB] Get: 155 http://deb.debian.org/debian forky/main amd64 fontconfig amd64 2.15.0-2.4 [464 kB] Get: 156 http://deb.debian.org/debian forky/main amd64 libthai-data all 0.1.29-2 [168 kB] Get: 157 http://deb.debian.org/debian forky/main amd64 libdatrie1 amd64 0.2.13-4 [38.0 kB] Get: 158 http://deb.debian.org/debian forky/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get: 159 http://deb.debian.org/debian forky/main amd64 libpango-1.0-0 amd64 1.56.3-2 [239 kB] Get: 160 http://deb.debian.org/debian forky/main amd64 libpangoft2-1.0-0 amd64 1.56.3-2 [62.0 kB] Get: 161 http://deb.debian.org/debian forky/main amd64 libpangocairo-1.0-0 amd64 1.56.3-2 [38.1 kB] Get: 162 http://deb.debian.org/debian forky/main amd64 libwayland-client0 amd64 1.24.0-2+b1 [28.5 kB] Get: 163 http://deb.debian.org/debian forky/main amd64 libwayland-cursor0 amd64 1.24.0-2+b1 [12.3 kB] Get: 164 http://deb.debian.org/debian forky/main amd64 libwayland-egl1 amd64 1.24.0-2+b1 [6224 B] Get: 165 http://deb.debian.org/debian forky/main amd64 libxcomposite1 amd64 1:0.4.6-1 [16.3 kB] Get: 166 http://deb.debian.org/debian forky/main amd64 libxfixes3 amd64 1:6.0.0-2+b4 [20.2 kB] Get: 167 http://deb.debian.org/debian forky/main amd64 libxcursor1 amd64 1:1.2.3-1 [39.7 kB] Get: 168 http://deb.debian.org/debian forky/main amd64 libxdamage1 amd64 1:1.1.6-1+b2 [15.5 kB] Get: 169 http://deb.debian.org/debian forky/main amd64 libxinerama1 amd64 2:1.1.4-3+b4 [16.0 kB] Get: 170 http://deb.debian.org/debian forky/main amd64 xkb-data all 2.42-1 [790 kB] Get: 171 http://deb.debian.org/debian forky/main amd64 libxkbcommon0 amd64 1.7.0-2.1 [113 kB] Get: 172 http://deb.debian.org/debian forky/main amd64 libxrandr2 amd64 2:1.5.4-1+b3 [36.3 kB] Get: 173 http://deb.debian.org/debian forky/main amd64 libgtk-3-common all 3.24.51-1 [4922 kB] Get: 174 http://deb.debian.org/debian forky/main amd64 libgtk-3-0t64 amd64 3.24.51-1 [2932 kB] Get: 175 http://deb.debian.org/debian forky/main amd64 libglvnd0 amd64 1.7.0-1+b2 [52.0 kB] Get: 176 http://deb.debian.org/debian forky/main amd64 libdrm-common all 2.4.127-1 [9060 B] Get: 177 http://deb.debian.org/debian forky/main amd64 libdrm2 amd64 2.4.127-1 [39.8 kB] Get: 178 http://deb.debian.org/debian forky/main amd64 libx11-xcb1 amd64 2:1.8.12-1 [247 kB] Get: 179 http://deb.debian.org/debian forky/main amd64 libxcb-dri3-0 amd64 1.17.0-2+b1 [107 kB] Get: 180 http://deb.debian.org/debian forky/main amd64 libxcb-glx0 amd64 1.17.0-2+b1 [122 kB] Get: 181 http://deb.debian.org/debian forky/main amd64 libxcb-present0 amd64 1.17.0-2+b1 [106 kB] Get: 182 http://deb.debian.org/debian forky/main amd64 libxcb-xfixes0 amd64 1.17.0-2+b1 [109 kB] Get: 183 http://deb.debian.org/debian forky/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b4 [19.3 kB] Get: 184 http://deb.debian.org/debian forky/main amd64 libdrm-amdgpu1 amd64 2.4.127-1 [23.8 kB] Get: 185 http://deb.debian.org/debian forky/main amd64 libpciaccess0 amd64 0.17-3+b3 [51.9 kB] Get: 186 http://deb.debian.org/debian forky/main amd64 libdrm-intel1 amd64 2.4.127-1 [65.6 kB] Get: 187 http://deb.debian.org/debian forky/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 188 http://deb.debian.org/debian forky/main amd64 libllvm19 amd64 1:19.1.7-7 [25.9 MB] Get: 189 http://deb.debian.org/debian forky/main amd64 libsensors-config all 1:3.6.2-2 [16.2 kB] Get: 190 http://deb.debian.org/debian forky/main amd64 libsensors5 amd64 1:3.6.2-2 [37.5 kB] Get: 191 http://deb.debian.org/debian forky/main amd64 libxcb-randr0 amd64 1.17.0-2+b1 [117 kB] Get: 192 http://deb.debian.org/debian forky/main amd64 libxcb-sync1 amd64 1.17.0-2+b1 [109 kB] Get: 193 http://deb.debian.org/debian forky/main amd64 libxshmfence1 amd64 1.3.3-1 [10.9 kB] Get: 194 http://deb.debian.org/debian forky/main amd64 mesa-libgallium amd64 25.2.5-1 [10.3 MB] Get: 195 http://deb.debian.org/debian forky/main amd64 libgbm1 amd64 25.2.5-1 [46.0 kB] Get: 196 http://deb.debian.org/debian forky/main amd64 libvulkan1 amd64 1.4.321.0-1 [133 kB] Get: 197 http://deb.debian.org/debian forky/main amd64 libgl1-mesa-dri amd64 25.2.5-1 [47.8 kB] Get: 198 http://deb.debian.org/debian forky/main amd64 libglx-mesa0 amd64 25.2.5-1 [116 kB] Get: 199 http://deb.debian.org/debian forky/main amd64 libglx0 amd64 1.7.0-1+b2 [34.9 kB] Get: 200 http://deb.debian.org/debian forky/main amd64 libgl1 amd64 1.7.0-1+b2 [89.5 kB] Get: 201 http://deb.debian.org/debian forky/main amd64 libasound2-data all 1.2.14-2 [21.1 kB] Get: 202 http://deb.debian.org/debian forky/main amd64 libasound2t64 amd64 1.2.14-2 [420 kB] Get: 203 http://deb.debian.org/debian forky/main amd64 libgif7 amd64 5.2.2-1+b1 [44.2 kB] Get: 204 http://deb.debian.org/debian forky/main amd64 x11-common all 1:7.7+26 [217 kB] Get: 205 http://deb.debian.org/debian forky/main amd64 libxtst6 amd64 2:1.2.5-1 [25.8 kB] Get: 206 http://deb.debian.org/debian forky/main amd64 openjdk-21-jre amd64 21.0.9+10-1 [210 kB] Get: 207 http://deb.debian.org/debian forky/main amd64 default-jre amd64 2:1.21-76 [1068 B] Get: 208 http://deb.debian.org/debian forky/main amd64 openjdk-21-jdk-headless amd64 21.0.9+10-1 [83.0 MB] Get: 209 http://deb.debian.org/debian forky/main amd64 default-jdk-headless amd64 2:1.21-76 [1124 B] Get: 210 http://deb.debian.org/debian forky/main amd64 openjdk-21-jdk amd64 21.0.9+10-1 [3523 kB] Get: 211 http://deb.debian.org/debian forky/main amd64 default-jdk amd64 2:1.21-76 [1076 B] Get: 212 http://deb.debian.org/debian forky/main amd64 libgpg-error0 amd64 1.56-2 [89.1 kB] Get: 213 http://deb.debian.org/debian forky/main amd64 libassuan9 amd64 3.0.2-2 [61.5 kB] Get: 214 http://deb.debian.org/debian forky/main amd64 libgcrypt20 amd64 1.11.2-2 [865 kB] Get: 215 http://deb.debian.org/debian forky/main amd64 gpgconf amd64 2.4.8-4 [129 kB] Get: 216 http://deb.debian.org/debian forky/main amd64 libksba8 amd64 1.6.7-2+b1 [136 kB] Get: 217 http://deb.debian.org/debian forky/main amd64 libnpth0t64 amd64 1.8-3 [23.2 kB] Get: 218 http://deb.debian.org/debian forky/main amd64 gpg amd64 2.4.8-4 [639 kB] Get: 219 http://deb.debian.org/debian forky/main amd64 pinentry-curses amd64 1.3.2-3 [87.8 kB] Get: 220 http://deb.debian.org/debian forky/main amd64 gpg-agent amd64 2.4.8-4 [273 kB] Get: 221 http://deb.debian.org/debian forky/main amd64 libfile-dirlist-perl all 0.05-3 [7600 B] Get: 222 http://deb.debian.org/debian forky/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 223 http://deb.debian.org/debian forky/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get: 224 http://deb.debian.org/debian forky/main amd64 libfile-touch-perl all 0.12-2 [8816 B] Get: 225 http://deb.debian.org/debian forky/main amd64 libio-string-perl all 1.08-4 [12.1 kB] Get: 226 http://deb.debian.org/debian forky/main amd64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB] Get: 227 http://deb.debian.org/debian forky/main amd64 libclass-xsaccessor-perl amd64 1.19-4+b5 [36.1 kB] Get: 228 http://deb.debian.org/debian forky/main amd64 libb-hooks-op-check-perl amd64 0.22-3+b2 [10.6 kB] Get: 229 http://deb.debian.org/debian forky/main amd64 libdynaloader-functions-perl all 0.004-2 [12.2 kB] Get: 230 http://deb.debian.org/debian forky/main amd64 libdevel-callchecker-perl amd64 0.009-2 [15.6 kB] Get: 231 http://deb.debian.org/debian forky/main amd64 libparams-classify-perl amd64 0.015-2+b4 [22.5 kB] Get: 232 http://deb.debian.org/debian forky/main amd64 libmodule-runtime-perl all 0.018-1 [17.8 kB] Get: 233 http://deb.debian.org/debian forky/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get: 234 http://deb.debian.org/debian forky/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get: 235 http://deb.debian.org/debian forky/main amd64 libsub-quote-perl all 2.006009-1 [21.3 kB] Get: 236 http://deb.debian.org/debian forky/main amd64 libmoo-perl all 2.005005-1 [58.0 kB] Get: 237 http://deb.debian.org/debian forky/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 238 http://deb.debian.org/debian forky/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 239 http://deb.debian.org/debian forky/main amd64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 240 http://deb.debian.org/debian forky/main amd64 libfile-listing-perl all 6.16-1 [12.4 kB] Get: 241 http://deb.debian.org/debian forky/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get: 242 http://deb.debian.org/debian forky/main amd64 liburi-perl all 5.30-1 [105 kB] Get: 243 http://deb.debian.org/debian forky/main amd64 libhtml-parser-perl amd64 3.83-1+b2 [99.7 kB] Get: 244 http://deb.debian.org/debian forky/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get: 245 http://deb.debian.org/debian forky/main amd64 libclone-perl amd64 0.47-1+b1 [13.9 kB] Get: 246 http://deb.debian.org/debian forky/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get: 247 http://deb.debian.org/debian forky/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 248 http://deb.debian.org/debian forky/main amd64 libhttp-message-perl all 7.01-1 [80.0 kB] Get: 249 http://deb.debian.org/debian forky/main amd64 libhttp-cookies-perl all 6.11-1 [19.1 kB] Get: 250 http://deb.debian.org/debian forky/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get: 251 http://deb.debian.org/debian forky/main amd64 perl-openssl-defaults amd64 7+b2 [6724 B] Get: 252 http://deb.debian.org/debian forky/main amd64 libnet-ssleay-perl amd64 1.94-3 [339 kB] Get: 253 http://deb.debian.org/debian forky/main amd64 libio-socket-ssl-perl all 2.095-1 [226 kB] Get: 254 http://deb.debian.org/debian forky/main amd64 libnet-http-perl all 6.24-1 [23.2 kB] Get: 255 http://deb.debian.org/debian forky/main amd64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB] Get: 256 http://deb.debian.org/debian forky/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 257 http://deb.debian.org/debian forky/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get: 258 http://deb.debian.org/debian forky/main amd64 libwww-perl all 6.81-1 [186 kB] Get: 259 http://deb.debian.org/debian forky/main amd64 patchutils amd64 0.4.3-1 [79.1 kB] Get: 260 http://deb.debian.org/debian forky/main amd64 rsopv amd64 0.6.4-1 [1385 kB] Get: 261 http://deb.debian.org/debian forky/main amd64 wdiff amd64 1.2.2-9 [122 kB] Get: 262 http://deb.debian.org/debian forky/main amd64 devscripts all 2.25.22 [1046 kB] Get: 263 http://deb.debian.org/debian forky/main amd64 fastjar amd64 2:0.98-7 [80.1 kB] Get: 264 http://deb.debian.org/debian forky/main amd64 libgfortran5 amd64 15.2.0-7 [862 kB] Get: 265 http://deb.debian.org/debian forky/main amd64 libgfortran-15-dev amd64 15.2.0-7 [886 kB] Get: 266 http://deb.debian.org/debian forky/main amd64 gfortran-15-x86-64-linux-gnu amd64 15.2.0-7 [12.7 MB] Get: 267 http://deb.debian.org/debian forky/main amd64 gfortran-15 amd64 15.2.0-7 [18.0 kB] Get: 268 http://deb.debian.org/debian forky/main amd64 libnl-3-200 amd64 3.11.0-2 [67.1 kB] Get: 269 http://deb.debian.org/debian forky/main amd64 libnl-route-3-200 amd64 3.11.0-2 [211 kB] Get: 270 http://deb.debian.org/debian forky/main amd64 libibverbs1 amd64 56.1-1+b1 [63.0 kB] Get: 271 http://deb.debian.org/debian forky/main amd64 ibverbs-providers amd64 56.1-1+b1 [361 kB] Get: 272 http://deb.debian.org/debian forky/main amd64 jarwrapper all 0.81 [9784 B] Get: 273 http://deb.debian.org/debian forky/main amd64 javahelper all 0.81 [79.4 kB] Get: 274 http://deb.debian.org/debian forky/main amd64 libhamcrest-java all 2.2-2 [121 kB] Get: 275 http://deb.debian.org/debian forky/main amd64 junit4 all 4.13.2-5 [350 kB] Get: 276 http://deb.debian.org/debian forky/main amd64 libapiguardian-java all 1.1.2-1 [4656 B] Get: 277 http://deb.debian.org/debian forky/main amd64 libopentest4j-java all 1.2.0-4 [9516 B] Get: 278 http://deb.debian.org/debian forky/main amd64 libopentest4j-reporting-java all 0.1.0-M1-2 [49.0 kB] Get: 279 http://deb.debian.org/debian forky/main amd64 libpicocli-java all 4.6.2-2 [390 kB] Get: 280 http://deb.debian.org/debian forky/main amd64 libunivocity-parsers-java all 2.9.1-1 [397 kB] Get: 281 http://deb.debian.org/debian forky/main amd64 junit5 all 5.10.3-1 [2459 kB] Get: 282 http://deb.debian.org/debian forky/main amd64 libgssrpc4t64 amd64 1.21.3-5 [60.0 kB] Get: 283 http://deb.debian.org/debian forky/main amd64 libkadm5clnt-mit12 amd64 1.21.3-5 [42.5 kB] Get: 284 http://deb.debian.org/debian forky/main amd64 libkdb5-10t64 amd64 1.21.3-5 [42.6 kB] Get: 285 http://deb.debian.org/debian forky/main amd64 libkadm5srv-mit12 amd64 1.21.3-5 [54.2 kB] Get: 286 http://deb.debian.org/debian forky/main amd64 krb5-multidev amd64 1.21.3-5 [126 kB] Get: 287 http://deb.debian.org/debian forky/main amd64 libllvm17t64 amd64 1:17.0.6-22+b3 [23.6 MB] Get: 288 http://deb.debian.org/debian forky/main amd64 libamd-comgr2 amd64 6.0+git20231212.4510c28+dfsg-3+b2 [13.0 MB] Get: 289 http://deb.debian.org/debian forky/main amd64 libnuma1 amd64 2.0.19-1 [22.2 kB] Get: 290 http://deb.debian.org/debian forky/main amd64 libhsakmt1 amd64 6.2.4+ds-1 [61.1 kB] Get: 291 http://deb.debian.org/debian forky/main amd64 libhsa-runtime64-1 amd64 6.1.2-3 [535 kB] Get: 292 http://deb.debian.org/debian forky/main amd64 libamdhip64-5 amd64 5.7.1-7 [8938 kB] Get: 293 http://deb.debian.org/debian forky/main amd64 libaopalliance-java all 20070526-7 [8572 B] Get: 294 http://deb.debian.org/debian forky/main amd64 libapache-pom-java all 33-2 [5852 B] Get: 295 http://deb.debian.org/debian forky/main amd64 libasm-java all 9.8-2 [391 kB] Get: 296 http://deb.debian.org/debian forky/main amd64 libatinject-jsr330-api-java all 1.0+ds1-6 [5112 B] Get: 297 http://deb.debian.org/debian forky/main amd64 libbrotli-dev amd64 1.1.0-2+b7 [316 kB] Get: 298 http://deb.debian.org/debian forky/main amd64 libbsh-java all 2.0b4-20 [291 kB] Get: 299 http://deb.debian.org/debian forky/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get: 300 http://deb.debian.org/debian forky/main amd64 libcommons-io-java all 2.19.0-1 [524 kB] Get: 301 http://deb.debian.org/debian forky/main amd64 libslf4j-java all 1.7.32-2 [142 kB] Get: 302 http://deb.debian.org/debian forky/main amd64 libmaven-shared-utils-java all 3.4.2-1 [137 kB] Get: 303 http://deb.debian.org/debian forky/main amd64 libcommons-cli-java all 1.6.0-1 [60.4 kB] Get: 304 http://deb.debian.org/debian forky/main amd64 libgeronimo-annotation-1.3-spec-java all 1.3-1 [11.1 kB] Get: 305 http://deb.debian.org/debian forky/main amd64 liberror-prone-java all 2.18.0-1 [22.5 kB] Get: 306 http://deb.debian.org/debian forky/main amd64 libjsr305-java all 0.1~+svn49-12 [26.6 kB] Get: 307 http://deb.debian.org/debian forky/main amd64 libguava-java all 32.0.1-1 [2708 kB] Get: 308 http://deb.debian.org/debian forky/main amd64 libguice-java all 5.1.0-1 [932 kB] Get: 309 http://deb.debian.org/debian forky/main amd64 libmaven-parent-java all 43-2 [6252 B] Get: 310 http://deb.debian.org/debian forky/main amd64 libcommons-lang3-java all 3.17.0-2 [641 kB] Get: 311 http://deb.debian.org/debian forky/main amd64 libplexus-utils2-java all 3.4.2-1 [258 kB] Get: 312 http://deb.debian.org/debian forky/main amd64 libwagon-provider-api-java all 3.5.3-2 [48.3 kB] Get: 313 http://deb.debian.org/debian forky/main amd64 libmaven-resolver-java all 1.9.22-1 [729 kB] Get: 314 http://deb.debian.org/debian forky/main amd64 libplexus-cipher-java all 2.0-1 [14.9 kB] Get: 315 http://deb.debian.org/debian forky/main amd64 libplexus-classworlds-java all 2.7.0-1 [50.6 kB] Get: 316 http://deb.debian.org/debian forky/main amd64 libplexus-component-annotations-java all 2.1.1-1 [7660 B] Get: 317 http://deb.debian.org/debian forky/main amd64 libplexus-interpolation-java all 1.27-1 [76.8 kB] Get: 318 http://deb.debian.org/debian forky/main amd64 libplexus-sec-dispatcher-java all 2.0-3 [28.3 kB] Get: 319 http://deb.debian.org/debian forky/main amd64 libgeronimo-interceptor-3.0-spec-java all 1.0.1-5 [8444 B] Get: 320 http://deb.debian.org/debian forky/main amd64 libcdi-api-java all 1.2-4 [55.3 kB] Get: 321 http://deb.debian.org/debian forky/main amd64 libsisu-inject-java all 0.3.5-1 [352 kB] Get: 322 http://deb.debian.org/debian forky/main amd64 libsisu-plexus-java all 0.3.5-1 [183 kB] Get: 323 http://deb.debian.org/debian forky/main amd64 libmaven3-core-java all 3.9.9-1 [1661 kB] Get: 324 http://deb.debian.org/debian forky/main amd64 libmaven-shared-io-java all 3.0.0-4 [33.2 kB] Get: 325 http://deb.debian.org/debian forky/main amd64 libmaven-file-management-java all 3.0.0-2 [35.1 kB] Get: 326 http://deb.debian.org/debian forky/main amd64 libbuild-helper-maven-plugin-java all 3.3.0-1 [59.5 kB] Get: 327 http://deb.debian.org/debian forky/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB] Get: 328 http://deb.debian.org/debian forky/main amd64 libcatch2-dev amd64 3.7.1-0.6 [646 kB] Get: 329 http://deb.debian.org/debian forky/main amd64 libcommons-collections3-java all 3.2.2-3 [530 kB] Get: 330 http://deb.debian.org/debian forky/main amd64 libcommons-logging-java all 1.3.0-2 [68.6 kB] Get: 331 http://deb.debian.org/debian forky/main amd64 libcommons-beanutils-java all 1.10.1-1.1 [231 kB] Get: 332 http://deb.debian.org/debian forky/main amd64 libcommons-codec-java all 1.18.0-1 [304 kB] Get: 333 http://deb.debian.org/debian forky/main amd64 libcommons-collections4-java all 4.4-2 [682 kB] Get: 334 http://deb.debian.org/debian forky/main amd64 libcommons-compress-java all 1.27.1-2 [641 kB] Get: 335 http://deb.debian.org/debian forky/main amd64 libcommons-digester-java all 1.8.1-7 [138 kB] Get: 336 http://deb.debian.org/debian forky/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get: 337 http://deb.debian.org/debian forky/main amd64 libcommons-lang-java all 2.6-12 [273 kB] Get: 338 http://deb.debian.org/debian forky/main amd64 libplexus-io-java all 3.3.1-2 [65.3 kB] Get: 339 http://deb.debian.org/debian forky/main amd64 libsnappy1v5 amd64 1.2.2-2 [30.7 kB] Get: 340 http://deb.debian.org/debian forky/main amd64 libsnappy-jni amd64 1.1.10.8-1 [6548 B] Get: 341 http://deb.debian.org/debian forky/main amd64 libsnappy-java all 1.1.10.8-1 [87.8 kB] Get: 342 http://deb.debian.org/debian forky/main amd64 libxz-java all 1.9-1 [143 kB] Get: 343 http://deb.debian.org/debian forky/main amd64 libplexus-archiver-java all 4.6.1-1 [187 kB] Get: 344 http://deb.debian.org/debian forky/main amd64 libmaven-archiver-java all 3.6.2-1 [26.1 kB] Get: 345 http://deb.debian.org/debian forky/main amd64 libmaven-jar-plugin-java all 3.3.0-2 [24.0 kB] Get: 346 http://deb.debian.org/debian forky/main amd64 libcommons-text-java all 1.13.1-1 [228 kB] Get: 347 http://deb.debian.org/debian forky/main amd64 sgml-base all 1.31+nmu1 [10.9 kB] Get: 348 http://deb.debian.org/debian forky/main amd64 libcommons-validator-java all 1:1.9.0-1 [191 kB] Get: 349 http://deb.debian.org/debian forky/main amd64 libidn2-dev amd64 2.3.8-4 [103 kB] Get: 350 http://deb.debian.org/debian forky/main amd64 libkrb5-dev amd64 1.21.3-5 [16.1 kB] Get: 351 http://deb.debian.org/debian forky/main amd64 libldap-dev amd64 2.6.10+dfsg-1 [312 kB] Get: 352 http://deb.debian.org/debian forky/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB] Get: 353 http://deb.debian.org/debian forky/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB] Get: 354 http://deb.debian.org/debian forky/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB] Get: 355 http://deb.debian.org/debian forky/main amd64 libnghttp2-dev amd64 1.64.0-1.1+b1 [117 kB] Get: 356 http://deb.debian.org/debian forky/main amd64 libnghttp3-dev amd64 1.12.0-1 [95.5 kB] Get: 357 http://deb.debian.org/debian forky/main amd64 libngtcp2-crypto-ossl-dev amd64 1.16.0-1 [28.4 kB] Get: 358 http://deb.debian.org/debian forky/main amd64 libngtcp2-dev amd64 1.16.0-1 [193 kB] Get: 359 http://deb.debian.org/debian forky/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB] Get: 360 http://deb.debian.org/debian forky/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-5 [330 kB] Get: 361 http://deb.debian.org/debian forky/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-5 [658 kB] Get: 362 http://deb.debian.org/debian forky/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB] Get: 363 http://deb.debian.org/debian forky/main amd64 libunbound8 amd64 1.24.1-1 [615 kB] Get: 364 http://deb.debian.org/debian forky/main amd64 libgnutls-dane0t64 amd64 3.8.10-3 [458 kB] Get: 365 http://deb.debian.org/debian forky/main amd64 libgnutls-openssl27t64 amd64 3.8.10-3 [458 kB] Get: 366 http://deb.debian.org/debian forky/main amd64 libp11-kit-dev amd64 0.25.9-2 [220 kB] Get: 367 http://deb.debian.org/debian forky/main amd64 libtasn1-6-dev amd64 4.20.0-2 [99.2 kB] Get: 368 http://deb.debian.org/debian forky/main amd64 nettle-dev amd64 3.10.2-1 [1322 kB] Get: 369 http://deb.debian.org/debian forky/main amd64 libgnutls28-dev amd64 3.8.10-3 [1431 kB] Get: 370 http://deb.debian.org/debian forky/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB] Get: 371 http://deb.debian.org/debian forky/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-3 [67.9 kB] Get: 372 http://deb.debian.org/debian forky/main amd64 libssl-dev amd64 3.5.4-1 [2980 kB] Get: 373 http://deb.debian.org/debian forky/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB] Get: 374 http://deb.debian.org/debian forky/main amd64 libzstd-dev amd64 1.5.7+dfsg-2 [375 kB] Get: 375 http://deb.debian.org/debian forky/main amd64 libcurl4-openssl-dev amd64 8.17.0~rc2-1 [530 kB] Get: 376 http://deb.debian.org/debian forky/main amd64 libcurlpp0t64 amd64 0.8.1-6 [28.3 kB] Get: 377 http://deb.debian.org/debian forky/main amd64 libcurlpp-dev amd64 0.8.1-6 [59.7 kB] Get: 378 http://deb.debian.org/debian forky/main amd64 libjaxen-java all 1.2.0-1 [214 kB] Get: 379 http://deb.debian.org/debian forky/main amd64 libdom4j-java all 2.1.4-1 [312 kB] Get: 380 http://deb.debian.org/debian forky/main amd64 libdoxia-core-java all 2.0.0-1 [149 kB] Get: 381 http://deb.debian.org/debian forky/main amd64 libplexus-xml-java all 3.0.1-2 [93.7 kB] Get: 382 http://deb.debian.org/debian forky/main amd64 libdoxia-java all 2.0.0-1 [113 kB] Get: 383 http://deb.debian.org/debian forky/main amd64 libmaven-reporting-api-java all 4.0.0-1 [6724 B] Get: 384 http://deb.debian.org/debian forky/main amd64 libxbean-reflect-java all 4.5-9 [132 kB] Get: 385 http://deb.debian.org/debian forky/main amd64 libplexus-container-default-java all 2.1.1-1 [193 kB] Get: 386 http://deb.debian.org/debian forky/main amd64 libplexus-i18n-java all 1.0-beta-10-6 [13.4 kB] Get: 387 http://deb.debian.org/debian forky/main amd64 velocity all 1.7-7 [431 kB] Get: 388 http://deb.debian.org/debian forky/main amd64 libplexus-velocity-java all 1.2-4 [9676 B] Get: 389 http://deb.debian.org/debian forky/main amd64 liboro-java all 2.0.8a-15 [69.3 kB] Get: 390 http://deb.debian.org/debian forky/main amd64 libvelocity-tools-java all 2.0-9 [311 kB] Get: 391 http://deb.debian.org/debian forky/main amd64 libdoxia-sitetools-java all 2.0.0-1 [176 kB] Get: 392 http://deb.debian.org/debian forky/main amd64 libel-api-java all 3.0.0-3 [64.9 kB] Get: 393 http://deb.debian.org/debian forky/main amd64 libevent-core-2.1-7t64 amd64 2.1.12-stable-10+b1 [132 kB] Get: 394 http://deb.debian.org/debian forky/main amd64 libevent-extra-2.1-7t64 amd64 2.1.12-stable-10+b1 [108 kB] Get: 395 http://deb.debian.org/debian forky/main amd64 libevent-pthreads-2.1-7t64 amd64 2.1.12-stable-10+b1 [54.3 kB] Get: 396 http://deb.debian.org/debian forky/main amd64 libevent-openssl-2.1-7t64 amd64 2.1.12-stable-10+b1 [61.1 kB] Get: 397 http://deb.debian.org/debian forky/main amd64 libevent-dev amd64 2.1.12-stable-10+b1 [305 kB] Get: 398 http://deb.debian.org/debian forky/main amd64 libezmorph-java all 1.0.6-4 [75.9 kB] Get: 399 http://deb.debian.org/debian forky/main amd64 libpsm2-2 amd64 11.2.185-2.1 [181 kB] Get: 400 http://deb.debian.org/debian forky/main amd64 librdmacm1t64 amd64 56.1-1+b1 [71.0 kB] Get: 401 http://deb.debian.org/debian forky/main amd64 libfabric1 amd64 2.1.0-1.1 [706 kB] Get: 402 http://deb.debian.org/debian forky/main amd64 libfmt10 amd64 10.1.1+ds1-4 [127 kB] Get: 403 http://deb.debian.org/debian forky/main amd64 libfmt-dev amd64 10.1.1+ds1-4 [177 kB] Get: 404 http://deb.debian.org/debian forky/main amd64 libgetopt-java all 1.0.14+dfsg-6 [25.7 kB] Get: 405 http://deb.debian.org/debian forky/main amd64 libgoogle-gson-java all 2.10.1-1 [262 kB] Get: 406 http://deb.debian.org/debian forky/main amd64 libxml-commons-external-java all 1.4.01-6 [240 kB] Get: 407 http://deb.debian.org/debian forky/main amd64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get: 408 http://deb.debian.org/debian forky/main amd64 libxerces2-java all 2.12.2-1 [1440 kB] Get: 409 http://deb.debian.org/debian forky/main amd64 libxom-java all 1.3.9-1 [174 kB] Get: 410 http://deb.debian.org/debian forky/main amd64 libjson-java all 3.2.0+dfsg-2 [142 kB] Get: 411 http://deb.debian.org/debian forky/main amd64 libmbedcrypto16 amd64 3.6.4-2 [360 kB] Get: 412 http://deb.debian.org/debian forky/main amd64 libmbedx509-7 amd64 3.6.4-2 [151 kB] Get: 413 http://deb.debian.org/debian forky/main amd64 libmbedtls21 amd64 3.6.4-2 [242 kB] Get: 414 http://deb.debian.org/debian forky/main amd64 ncbi-vdb-data all 3.2.1+dfsg-2 [88.5 kB] Get: 415 http://deb.debian.org/debian forky/main amd64 libncbi-vdb3 amd64 3.2.1+dfsg-2 [1164 kB] Get: 416 http://deb.debian.org/debian forky/main amd64 libncbi-ngs3 amd64 3.2.1+dfsg-5 [159 kB] Get: 417 http://deb.debian.org/debian forky/main amd64 libngs-jni amd64 3.2.1+dfsg-5 [27.8 kB] Get: 418 http://deb.debian.org/debian forky/main amd64 libngs-java amd64 3.2.1+dfsg-5 [114 kB] Get: 419 http://deb.debian.org/debian forky/main amd64 librhino-java all 1.7.15-1 [1382 kB] Get: 420 http://deb.debian.org/debian forky/main amd64 libhtsjdk-java all 4.1.3+dfsg-2 [1841 kB] Get: 421 http://deb.debian.org/debian forky/main amd64 libhttpcore-java all 4.4.16-1 [636 kB] Get: 422 http://deb.debian.org/debian forky/main amd64 libhttpclient-java all 4.5.14-1 [1247 kB] Get: 423 http://deb.debian.org/debian forky/main amd64 libhwloc15 amd64 2.12.2-1 [164 kB] Get: 424 http://deb.debian.org/debian forky/main amd64 libnuma-dev amd64 2.0.19-1 [36.5 kB] Get: 425 http://deb.debian.org/debian forky/main amd64 libltdl7 amd64 2.5.4-7 [416 kB] Get: 426 http://deb.debian.org/debian forky/main amd64 libltdl-dev amd64 2.5.4-7 [168 kB] Get: 427 http://deb.debian.org/debian forky/main amd64 libhwloc-dev amd64 2.12.2-1 [257 kB] Get: 428 http://deb.debian.org/debian forky/main amd64 libxnvctrl0 amd64 535.171.04-1+b2 [14.2 kB] Get: 429 http://deb.debian.org/debian forky/main amd64 libze1 amd64 1.24.1-2 [514 kB] Get: 430 http://deb.debian.org/debian forky/main amd64 ocl-icd-libopencl1 amd64 2.3.4-1 [43.0 kB] Get: 431 http://deb.debian.org/debian forky/main amd64 libhwloc-plugins amd64 2.12.2-1 [23.5 kB] Get: 432 http://deb.debian.org/debian forky/main amd64 libibumad3 amd64 56.1-1+b1 [30.1 kB] Get: 433 http://deb.debian.org/debian forky/main amd64 libibmad5 amd64 56.1-1+b1 [44.9 kB] Get: 434 http://deb.debian.org/debian forky/main amd64 libnl-3-dev amd64 3.11.0-2 [110 kB] Get: 435 http://deb.debian.org/debian forky/main amd64 libnl-route-3-dev amd64 3.11.0-2 [235 kB] Get: 436 http://deb.debian.org/debian forky/main amd64 libibverbs-dev amd64 56.1-1+b1 [659 kB] Get: 437 http://deb.debian.org/debian forky/main amd64 libjansi-java all 2.4.1-2 [100 kB] Get: 438 http://deb.debian.org/debian forky/main amd64 libjcommander-java all 1.71-4 [73.0 kB] Get: 439 http://deb.debian.org/debian forky/main amd64 libjsp-api-java all 2.3.4-3 [53.7 kB] Get: 440 http://deb.debian.org/debian forky/main amd64 libservlet-api-java all 4.0.1-2 [81.0 kB] Get: 441 http://deb.debian.org/debian forky/main amd64 libwebsocket-api-java all 1.1-2 [40.1 kB] Get: 442 http://deb.debian.org/debian forky/main amd64 libjetty9-java all 9.4.57-1.1 [2965 kB] Get: 443 http://deb.debian.org/debian forky/main amd64 libjs-jquery all 3.7.1+dfsg+~3.5.33-1 [319 kB] Get: 444 http://deb.debian.org/debian forky/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 445 http://deb.debian.org/debian forky/main amd64 libjson-simple-java all 2.3.0-2 [61.7 kB] Get: 446 http://deb.debian.org/debian forky/main amd64 libjsoup-java all 1.15.3-1 [431 kB] Get: 447 http://deb.debian.org/debian forky/main amd64 libjtidy-java all 7+svn20110807-6 [251 kB] Get: 448 http://deb.debian.org/debian forky/main amd64 liblightcouch-java all 0.2.0-1 [75.0 kB] Get: 449 http://deb.debian.org/debian forky/main amd64 libmongodb-java all 3.6.3-2 [1901 kB] Get: 450 http://deb.debian.org/debian forky/main amd64 liblog4j2-java all 2.19.0-2 [2310 kB] Get: 451 http://deb.debian.org/debian forky/main amd64 liblzma-dev amd64 5.8.1-2 [349 kB] Get: 452 http://deb.debian.org/debian forky/main amd64 libmaven-antrun-plugin-java all 3.1.0-1 [36.9 kB] Get: 453 http://deb.debian.org/debian forky/main amd64 libmaven-clean-plugin-java all 3.2.0-2 [32.2 kB] Get: 454 http://deb.debian.org/debian forky/main amd64 libmaven-common-artifact-filters-java all 3.4.0-1 [47.7 kB] Get: 455 http://deb.debian.org/debian forky/main amd64 libmaven-shared-incremental-java all 1.1-6 [9916 B] Get: 456 http://deb.debian.org/debian forky/main amd64 libplexus-compiler-java all 2.13.0-1 [99.5 kB] Get: 457 http://deb.debian.org/debian forky/main amd64 libqdox2-java all 2.0.3-1 [296 kB] Get: 458 http://deb.debian.org/debian forky/main amd64 libplexus-languages-java all 1.1.1-3 [47.8 kB] Get: 459 http://deb.debian.org/debian forky/main amd64 libmaven-compiler-plugin-java all 3.13.0-1 [78.8 kB] Get: 460 http://deb.debian.org/debian forky/main amd64 libplexus-build-api-java all 0.0.7-4 [10.3 kB] Get: 461 http://deb.debian.org/debian forky/main amd64 libmaven-filtering-java all 3.4.0-1 [51.4 kB] Get: 462 http://deb.debian.org/debian forky/main amd64 libplexus-ant-factory-java all 1.0~alpha2.1-5 [11.7 kB] Get: 463 http://deb.debian.org/debian forky/main amd64 libplexus-container-default1.5-java all 2.1.1-1 [4476 B] Get: 464 http://deb.debian.org/debian forky/main amd64 libplexus-bsh-factory-java all 1.0~alpha7-5 [8360 B] Get: 465 http://deb.debian.org/debian forky/main amd64 libmaven-plugin-tools-java all 3.10.2-2 [245 kB] Get: 466 http://deb.debian.org/debian forky/main amd64 libmaven-reporting-exec-java all 2.0.0-1 [23.9 kB] Get: 467 http://deb.debian.org/debian forky/main amd64 libmaven-reporting-impl-java all 4.0.0-1 [17.6 kB] Get: 468 http://deb.debian.org/debian forky/main amd64 libmaven-resources-plugin-java all 3.3.1-1 [27.5 kB] Get: 469 http://deb.debian.org/debian forky/main amd64 libmaven-site-plugin-java all 3.21.0-1 [106 kB] Get: 470 http://deb.debian.org/debian forky/main amd64 libmunge2 amd64 0.5.16-1 [19.7 kB] Get: 471 http://deb.debian.org/debian forky/main amd64 libmuparserx4.0.12 amd64 4.0.12-2 [198 kB] Get: 472 http://deb.debian.org/debian forky/main amd64 libmuparserx-dev amd64 4.0.12-2 [38.5 kB] Get: 473 http://deb.debian.org/debian forky/main amd64 libpmix2t64 amd64 6.0.0+really5.0.8-1 [668 kB] Get: 474 http://deb.debian.org/debian forky/main amd64 libucx0 amd64 1.19.0+ds-1 [1336 kB] Get: 475 http://deb.debian.org/debian forky/main amd64 libopenmpi40 amd64 5.0.8-10+b1 [2414 kB] Get: 476 http://deb.debian.org/debian forky/main amd64 openmpi-common all 5.0.8-10 [97.5 kB] Get: 477 http://deb.debian.org/debian forky/main amd64 openmpi-bin amd64 5.0.8-10+b1 [190 kB] Get: 478 http://deb.debian.org/debian forky/main amd64 libopenmpi-dev amd64 5.0.8-10+b1 [1090 kB] Get: 479 http://deb.debian.org/debian forky/main amd64 libprotobuf32t64 amd64 3.21.12-14 [988 kB] Get: 480 http://deb.debian.org/debian forky/main amd64 libprotobuf-lite32t64 amd64 3.21.12-14 [281 kB] Get: 481 http://deb.debian.org/debian forky/main amd64 libprotobuf-dev amd64 3.21.12-14 [1338 kB] Get: 482 http://deb.debian.org/debian forky/main amd64 libprotobuf-java all 3.21.12-14 [1268 kB] Get: 483 http://deb.debian.org/debian forky/main amd64 libprotoc32t64 amd64 3.21.12-14 [938 kB] Get: 484 http://deb.debian.org/debian forky/main amd64 libspdlog1.15 amd64 1:1.15.3+ds-1 [109 kB] Get: 485 http://deb.debian.org/debian forky/main amd64 libspdlog-dev amd64 1:1.15.3+ds-1 [91.9 kB] Get: 486 http://deb.debian.org/debian forky/main amd64 libsurefire-java all 2.22.3-4 [1391 kB] Get: 487 http://deb.debian.org/debian forky/main amd64 libwagon-file-java all 3.5.3-2 [8452 B] Get: 488 http://deb.debian.org/debian forky/main amd64 libwagon-http-java all 3.5.3-2 [49.6 kB] Get: 489 http://deb.debian.org/debian forky/main amd64 libxml2-utils amd64 2.14.6+dfsg-0.1 [123 kB] Get: 490 http://deb.debian.org/debian forky/main amd64 maven all 3.9.9-1 [19.7 kB] Get: 491 http://deb.debian.org/debian forky/main amd64 maven-repo-helper all 1.12 [136 kB] Get: 492 http://deb.debian.org/debian forky/main amd64 unzip amd64 6.0-29 [173 kB] Get: 493 http://deb.debian.org/debian forky/main amd64 maven-debian-helper all 2.6.9 [104 kB] Get: 494 http://deb.debian.org/debian forky/main amd64 mpi-default-dev amd64 1.19 [3432 B] Get: 495 http://deb.debian.org/debian forky/main amd64 protobuf-compiler amd64 3.21.12-14 [85.0 kB] Get: 496 http://deb.debian.org/debian forky/main amd64 rapidjson-dev all 1.1.0+dfsg2-7.6 [98.2 kB] Get: 497 http://deb.debian.org/debian forky/main amd64 testng all 6.9.12-4 [795 kB] Get: 498 http://deb.debian.org/debian forky/main amd64 uuid-dev amd64 2.41.2-4 [49.9 kB] Fetched 390 MB in 16s (24.4 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 ... 19869 files and directories currently installed.) Preparing to unpack .../libsystemd-shared_258.1-2_amd64.deb ... Unpacking libsystemd-shared:amd64 (258.1-2) ... Setting up libsystemd-shared:amd64 (258.1-2) ... Selecting previously unselected package systemd. (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 ... 19877 files and directories currently installed.) Preparing to unpack .../systemd_258.1-2_amd64.deb ... Unpacking systemd (258.1-2) ... Setting up systemd (258.1-2) ... Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' -> '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' -> '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'. Initializing machine ID from random generator. Creating group 'systemd-journal' with GID 999. Creating group 'systemd-network' with GID 998. Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998. /usr/lib/tmpfiles.d/legacy.conf:14: Duplicate line for path "/run/lock", ignoring. Selecting previously unselected package systemd-sysv. (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 ... 20875 files and directories currently installed.) Preparing to unpack .../00-systemd-sysv_258.1-2_amd64.deb ... Unpacking systemd-sysv (258.1-2) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../01-libdbus-1-3_1.16.2-2_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.16.2-2) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../02-dbus-bin_1.16.2-2_amd64.deb ... Unpacking dbus-bin (1.16.2-2) ... Selecting previously unselected package dbus-session-bus-common. Preparing to unpack .../03-dbus-session-bus-common_1.16.2-2_all.deb ... Unpacking dbus-session-bus-common (1.16.2-2) ... Selecting previously unselected package libapparmor1:amd64. Preparing to unpack .../04-libapparmor1_4.1.0-1_amd64.deb ... Unpacking libapparmor1:amd64 (4.1.0-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../05-libexpat1_2.7.3-1_amd64.deb ... Unpacking libexpat1:amd64 (2.7.3-1) ... Selecting previously unselected package dbus-daemon. Preparing to unpack .../06-dbus-daemon_1.16.2-2_amd64.deb ... Unpacking dbus-daemon (1.16.2-2) ... Selecting previously unselected package dbus-system-bus-common. Preparing to unpack .../07-dbus-system-bus-common_1.16.2-2_all.deb ... Unpacking dbus-system-bus-common (1.16.2-2) ... Selecting previously unselected package dbus. Preparing to unpack .../08-dbus_1.16.2-2_amd64.deb ... Unpacking dbus (1.16.2-2) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../09-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package binfmt-support. Preparing to unpack .../10-binfmt-support_2.2.2-7_amd64.deb ... Unpacking binfmt-support (2.2.2-7) ... Selecting previously unselected package libpython3.13-minimal:amd64. Preparing to unpack .../11-libpython3.13-minimal_3.13.9-1_amd64.deb ... Unpacking libpython3.13-minimal:amd64 (3.13.9-1) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../12-python3.13-minimal_3.13.9-1_amd64.deb ... Unpacking python3.13-minimal (3.13.9-1) ... Setting up libpython3.13-minimal:amd64 (3.13.9-1) ... Setting up libexpat1:amd64 (2.7.3-1) ... Setting up python3.13-minimal (3.13.9-1) ... Selecting previously unselected package python3-minimal. (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 ... 21325 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.7-1_amd64.deb ... Unpacking python3-minimal (3.13.7-1) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_14.0.0_all.deb ... Unpacking media-types (14.0.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.5_all.deb ... Unpacking netbase (6.5) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025b-5_all.deb ... Unpacking tzdata (2025b-5) ... Selecting previously unselected package libffi8:amd64. Preparing to unpack .../4-libffi8_3.5.2-2_amd64.deb ... Unpacking libffi8:amd64 (3.5.2-2) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.3-3_all.deb ... Unpacking readline-common (8.3-3) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../6-libreadline8t64_8.3-3_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.3-3) ... Selecting previously unselected package libpython3.13-stdlib:amd64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.9-1_amd64.deb ... Unpacking libpython3.13-stdlib:amd64 (3.13.9-1) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.9-1_amd64.deb ... Unpacking python3.13 (3.13.9-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../9-libpython3-stdlib_3.13.7-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.13.7-1) ... Setting up python3-minimal (3.13.7-1) ... Selecting previously unselected package python3. (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 ... 22340 files and directories currently installed.) Preparing to unpack .../000-python3_3.13.7-1_amd64.deb ... Unpacking python3 (3.13.7-1) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../001-libproc2-0_2%3a4.0.4-9_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-9) ... Selecting previously unselected package procps. Preparing to unpack .../002-procps_2%3a4.0.4-9_amd64.deb ... Unpacking procps (2:4.0.4-9) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../003-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package openssl. Preparing to unpack .../004-openssl_3.5.4-1_amd64.deb ... Unpacking openssl (3.5.4-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../005-ca-certificates_20250419_all.deb ... Unpacking ca-certificates (20250419) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../006-libmagic-mgc_1%3a5.46-5_amd64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../007-libmagic1t64_1%3a5.46-5_amd64.deb ... 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Setting up libnl-route-3-200:amd64 (3.11.0-2) ... Setting up libxnvctrl0:amd64 (535.171.04-1+b2) ... Setting up libprotobuf-dev:amd64 (3.21.12-14) ... Setting up dh-autoreconf (21) ... Setting up patchutils (0.4.3-1) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up libltdl-dev:amd64 (2.5.4-7) ... Setting up libthai0:amd64 (0.1.29-2+b1) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libsisu-plexus-java (0.3.5-1) ... Setting up libglib2.0-0t64:amd64 (2.86.1-1) ... Setting up libmbedx509-7:amd64 (3.6.4-2) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libllvm17t64:amd64 (1:17.0.6-22+b3) ... Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libxfixes3:amd64 (1:6.0.0-2+b4) ... Setting up testng (6.9.12-4) ... Setting up libldap-dev:amd64 (2.6.10+dfsg-1) ... Setting up dbus (1.16.2-2) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b3) ... Setting up libp11-kit0:amd64 (0.25.9-2) ... Setting up libxinerama1:amd64 (2:1.1.4-3+b4) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-5) ... Setting up libxrandr2:amd64 (2:1.5.4-1+b3) ... Setting up libcommons-collections4-java (4.4-2) ... Setting up libfmt-dev:amd64 (10.1.1+ds1-4) ... Setting up libspdlog1.15:amd64 (1:1.15.3+ds-1) ... Setting up libssh2-1-dev:amd64 (1.11.1-1) ... Setting up libidn2-dev:amd64 (2.3.8-4) ... Setting up libngtcp2-crypto-ossl0:amd64 (1.16.0-1) ... Setting up libcommons-lang3-java (3.17.0-2) ... Setting up libevent-extra-2.1-7t64:amd64 (2.1.12-stable-10+b1) ... Setting up libmbedtls21:amd64 (3.6.4-2) ... Setting up libngtcp2-crypto-ossl-dev:amd64 (1.16.0-1) ... Setting up libreadline8t64:amd64 (8.3-3) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libdrm2:amd64 (2.4.127-1) ... Setting up libnl-3-dev:amd64 (3.11.0-2) ... Setting up groff-base (1.23.0-9) ... Setting up libwayland-cursor0:amd64 (1.24.0-2+b1) ... Setting up libhtml-parser-perl:amd64 (3.83-1+b2) ... Setting up gpgconf (2.4.8-4) ... Setting up libpam-systemd:amd64 (258.1-2) ... Setting up libcommons-beanutils-java (1.10.1-1.1) ... Setting up libplexus-sec-dispatcher-java (2.0-3) ... Setting up libharfbuzz0b:amd64 (12.1.0-1) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.44.4+dfsg-1) ... Setting up libhwloc-dev:amd64 (2.12.2-1) ... Setting up libsnappy-java (1.1.10.8-1) ... Setting up libamd-comgr2:amd64 (6.0+git20231212.4510c28+dfsg-3+b2) ... Setting up libfontconfig1:amd64 (2.15.0-2.4) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up libwagon-file-java (3.5.3-2) ... Setting up libxml2-utils (2.14.6+dfsg-0.1) ... Setting up libcommons-codec-java (1.18.0-1) ... Setting up libpython3.13-stdlib:amd64 (3.13.9-1) ... Setting up libavahi-client3:amd64 (0.8-17) ... Setting up libio-socket-ssl-perl (2.095-1) ... Setting up gpg (2.4.8-4) ... Created symlink '/etc/systemd/user/sockets.target.wants/keyboxd.socket' -> '/usr/lib/systemd/user/keyboxd.socket'. Setting up libp11-kit-dev:amd64 (0.25.9-2) ... Setting up libpython3-stdlib:amd64 (3.13.7-1) ... Setting up libhttp-message-perl (7.01-1) ... Setting up libdrm-amdgpu1:amd64 (2.4.127-1) ... Setting up libgnutls30t64:amd64 (3.8.10-3) ... Setting up libgnutls-openssl27t64:amd64 (3.8.10-3) ... Setting up gtk-update-icon-cache (4.20.2+ds-2) ... Setting up gfortran-15-x86-64-linux-gnu (15.2.0-7) ... Setting up libnghttp2-dev:amd64 (1.64.0-1.1+b1) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up velocity (1.7-7) ... Setting up libibverbs1:amd64 (56.1-1+b1) ... Setting up fontconfig (2.15.0-2.4) ... Regenerating fonts cache... done. Setting up gpg-agent (2.4.8-4) ... Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket' -> '/usr/lib/systemd/user/gpg-agent-browser.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket' -> '/usr/lib/systemd/user/gpg-agent-extra.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket' -> '/usr/lib/systemd/user/gpg-agent-ssh.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent.socket' -> '/usr/lib/systemd/user/gpg-agent.socket'. Setting up libatk1.0-0t64:amd64 (2.58.1-1) ... Setting up openjdk-21-jre-headless:amd64 (21.0.9+10-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libxi6:amd64 (2:1.8.2-1) ... Setting up ibverbs-providers:amd64 (56.1-1+b1) ... Setting up libhttp-cookies-perl (6.11-1) ... Setting up python3.13 (3.13.9-1) ... Setting up libcommons-io-java (2.19.0-1) ... Setting up libcommons-digester-java (1.8.1-7) ... Setting up openssh-client (1:10.2p1-2) ... Created symlink '/etc/systemd/user/sockets.target.wants/ssh-agent.socket' -> '/usr/lib/systemd/user/ssh-agent.socket'. Setting up libxtst6:amd64 (2:1.2.5-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libxcursor1:amd64 (1:1.2.3-1) ... Setting up libparams-classify-perl:amd64 (0.015-2+b4) ... Setting up libpango-1.0-0:amd64 (1.56.3-2) ... Setting up libdrm-intel1:amd64 (2.4.127-1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libncbi-vdb3:amd64 (3.2.1+dfsg-2) ... Setting up libcloudproviders0:amd64 (0.3.6-3) ... Setting up python3 (3.13.7-1) ... Setting up libhwloc-plugins:amd64 (2.12.2-1) ... Setting up libspdlog-dev:amd64 (1:1.15.3+ds-1) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'. Setting up libcairo2:amd64 (1.18.4-1+b1) ... Setting up libcolord2:amd64 (1.4.8-2) ... Setting up libpsl-dev:amd64 (0.21.2-1.1+b1) ... Setting up libdconf1:amd64 (0.49.0-1) ... Setting up libnl-route-3-dev:amd64 (3.11.0-2) ... Setting up libmaven-filtering-java (3.4.0-1) ... Setting up dbus-user-session (1.16.2-2) ... Setting up libmaven-resolver-java (1.9.22-1) ... Setting up libgnutls-dane0t64:amd64 (3.8.10-3) ... Setting up adwaita-icon-theme (49.0-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libmodule-runtime-perl (0.018-1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libgssrpc4t64:amd64 (1.21.3-5) ... Setting up libatspi2.0-0t64:amd64 (2.58.1-1) ... Setting up libevent-dev (2.1.12-stable-10+b1) ... Setting up libpmix2t64:amd64 (6.0.0+really5.0.8-1) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up libmaven-common-artifact-filters-java (3.4.0-1) ... Setting up librdmacm1t64:amd64 (56.1-1+b1) ... Setting up liblightcouch-java (0.2.0-1) ... Setting up libwagon-http-java (3.5.3-2) ... Setting up libcairo-gobject2:amd64 (1.18.4-1+b1) ... Setting up libmaven-shared-utils-java (3.4.2-1) ... Setting up libpangoft2-1.0-0:amd64 (1.56.3-2) ... Setting up libmaven-resources-plugin-java (3.3.1-1) ... Setting up libcups2t64:amd64 (2.4.14-1) ... Setting up libhsakmt1:amd64 (6.2.4+ds-1) ... Setting up gfortran-15 (15.2.0-7) ... Setting up libpangocairo-1.0-0:amd64 (1.56.3-2) ... Setting up libkadm5clnt-mit12:amd64 (1.21.3-5) ... Setting up libgnutls28-dev:amd64 (3.8.10-3) ... Setting up libncbi-ngs3:amd64 (3.2.1+dfsg-5) ... Setting up libatk-bridge2.0-0t64:amd64 (2.58.1-1) ... Setting up libfabric1:amd64 (2.1.0-1.1) ... Setting up mesa-libgallium:amd64 (25.2.5-1) ... Setting up libngs-jni:amd64 (3.2.1+dfsg-5) ... Setting up libplexus-io-java (3.3.1-2) ... Setting up libcommons-compress-java (1.27.1-2) ... Setting up libcurl4t64:amd64 (8.17.0~rc2-1) ... Setting up libkdb5-10t64:amd64 (1.21.3-5) ... Setting up libcommons-validator-java (1:1.9.0-1) ... Setting up libgbm1:amd64 (25.2.5-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up liblog4j2-java (2.19.0-2) ... Setting up libcurlpp0t64:amd64 (0.8.1-6) ... Setting up libgl1-mesa-dri:amd64 (25.2.5-1) ... Setting up debhelper (13.28) ... Setting up dconf-service (0.49.0-1) ... Setting up libibverbs-dev:amd64 (56.1-1+b1) ... Setting up librtmp-dev:amd64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libmaven-clean-plugin-java (3.2.0-2) ... Setting up libhsa-runtime64-1:amd64 (6.1.2-3) ... Setting up libkadm5srv-mit12:amd64 (1.21.3-5) ... Setting up cmake (4.1.1+really3.31.6-2) ... Setting up libplexus-archiver-java (4.6.1-1) ... Setting up libngs-java:amd64 (3.2.1+dfsg-5) ... Setting up krb5-multidev:amd64 (1.21.3-5) ... Setting up libglx-mesa0:amd64 (25.2.5-1) ... Setting up libglx0:amd64 (1.7.0-1+b2) ... Setting up dconf-gsettings-backend:amd64 (0.49.0-1) ... Setting up libmaven-archiver-java (3.6.2-1) ... Setting up libkrb5-dev:amd64 (1.21.3-5) ... Setting up libgl1:amd64 (1.7.0-1+b2) ... Setting up libamdhip64-5:amd64 (5.7.1-7) ... Setting up libcurl4-openssl-dev:amd64 (8.17.0~rc2-1) ... Setting up libcurlpp-dev:amd64 (0.8.1-6) ... Setting up libgtk-3-common (3.24.51-1) ... Setting up libucx0:amd64 (1.19.0+ds-1) ... Setting up libgtk-3-0t64:amd64 (3.24.51-1) ... Setting up libopenmpi40:amd64 (5.0.8-10+b1) ... Setting up openmpi-bin (5.0.8-10+b1) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: warning: skip creation of /usr/share/man/man1/mpiexec.1.gz because associated file /usr/share/man/man1/mpiexec.openmpi.1.gz (of link group mpirun) doesn't exist update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up libopenmpi-dev:amd64 (5.0.8-10+b1) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/openmpi/include to provide /usr/include/x86_64-linux-gnu/mpi (mpi-x86_64-linux-gnu) in auto mode Setting up mpi-default-dev (1.19) ... Setting up liberror-prone-java (2.18.0-1) ... Setting up libwww-perl (6.81-1) ... Setting up devscripts (2.25.22) ... Setting up libguava-java (32.0.1-1) ... Setting up javahelper (0.81) ... Setting up libprotobuf-java (3.21.12-14) ... Setting up libplexus-container-default-java (2.1.1-1) ... Setting up liblwp-protocol-https-perl (6.14-1) ... Setting up libguice-java (5.1.0-1) ... Setting up libplexus-i18n-java (1.0-beta-10-6) ... Setting up libplexus-container-default1.5-java (2.1.1-1) ... Setting up libplexus-velocity-java (1.2-4) ... Setting up libmaven3-core-java (3.9.9-1) ... Setting up libmaven-shared-incremental-java (1.1-6) ... Setting up libmaven-shared-io-java (3.0.0-4) ... Setting up libplexus-bsh-factory-java (1.0~alpha7-5) ... Setting up libplexus-compiler-java (2.13.0-1) ... Setting up libmaven-compiler-plugin-java (3.13.0-1) ... Setting up libmaven-file-management-java (3.0.0-2) ... Setting up libbuild-helper-maven-plugin-java (3.3.0-1) ... Setting up libmaven-jar-plugin-java (3.3.0-2) ... Setting up libcommons-text-java (1.13.1-1) ... Setting up libdoxia-core-java (2.0.0-1) ... Setting up libdoxia-java (2.0.0-1) ... Setting up libmaven-reporting-api-java (4.0.0-1) ... Setting up libmaven-reporting-exec-java (2.0.0-1) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for systemd (258.1-2) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_BR_Root_CA_2_2023.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_2_2023.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:FIRMAPROFESIONAL_CA_ROOT-A_WEB.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_Root_CA12.pem Adding debian:SecureSign_Root_CA14.pem Adding debian:SecureSign_Root_CA15.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_CYBER_Root_CA.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:Telekom_Security_TLS_ECC_Root_2020.pem Adding debian:Telekom_Security_TLS_RSA_Root_2023.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up maven (3.9.9-1) ... update-alternatives: using /usr/share/maven/bin/mvn to provide /usr/bin/mvn (mvn) in auto mode Setting up openjdk-21-jre:amd64 (21.0.9+10-1) ... Setting up ant (1.10.15-1) ... Setting up junit4 (4.13.2-5) ... Setting up openjdk-21-jdk-headless:amd64 (21.0.9+10-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jwebserver to provide /usr/bin/jwebserver (jwebserver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre-headless (2:1.21-76) ... Setting up maven-repo-helper (1.12) ... Setting up default-jre (2:1.21-76) ... Setting up libmaven-antrun-plugin-java (3.1.0-1) ... Setting up libplexus-ant-factory-java (1.0~alpha2.1-5) ... Setting up openjdk-21-jdk:amd64 (21.0.9+10-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up default-jdk-headless (2:1.21-76) ... Setting up junit5 (5.10.3-1) ... Setting up libjson-java (3.2.0+dfsg-2) ... Setting up libhtsjdk-java (4.1.3+dfsg-2) ... Setting up libmaven-plugin-tools-java (3.10.2-2) ... Setting up default-jdk (2:1.21-76) ... Processing triggers for sgml-base (1.31+nmu1) ... Setting up libvelocity-tools-java (2.0-9) ... Setting up libdoxia-sitetools-java (2.0.0-1) ... Setting up libmaven-site-plugin-java (3.21.0-1) ... Setting up libmaven-reporting-impl-java (4.0.0-1) ... Setting up libsurefire-java (2.22.3-4) ... Setting up maven-debian-helper (2.6.9) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20240118) ... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/25376/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for forky I: user script /srv/workspace/pbuilder/25376/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/genomicsdb-1.5.5/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../genomicsdb_1.5.5-2_source.changes dpkg-buildpackage: info: source package genomicsdb dpkg-buildpackage: info: source version 1.5.5-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Pierre Gruet dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem=cmake --with javahelper debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Removing the files we provided manually for the build of the component if [ -e genomicsdb-htslib/CMakeLists.txt ]; then rm genomicsdb-htslib/CMakeLists.txt; fi if [ -e genomicsdb-htslib/config.h ]; then rm genomicsdb-htslib/config.h; fi if [ -e genomicsdb-htslib/version.h ]; then rm genomicsdb-htslib/version.h; fi dh_auto_clean dh_auto_clean --buildsystem=maven bash -c "for dir in \$(find . -name target -type d); do if [ -f \$(echo \$dir | sed -e s/target\$/pom.xml/) ]; then rm -Rf \$dir; fi done" mh_unpatchpoms -plibgenomicsdb-java # Removing the debian/maven.properties file we setup during configure step. if [ -e debian/maven.properties ]; then rm debian/maven.properties; fi # Removing the patched pom.xml file. if [ -e pom.xml.old ]; then mv pom.xml.old pom.xml; fi make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' dh_autoreconf_clean -O--buildsystem=cmake jh_clean -O--buildsystem=cmake Duplicate specification "unlink|u" for option "u" dh_clean -O--buildsystem=cmake debian/rules binary dh binary --buildsystem=cmake --with javahelper dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake debian/rules override_dh_auto_configure-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Preparing the build of the htslib component. cp debian/htslibComponentFiles/* genomicsdb-htslib/ echo '#define HTS_VERSION_TEXT ""' > genomicsdb-htslib/version.h # Configuring the C++ part using CMake. dh_auto_configure -- \ -DBUILD_JAVA:BOOL=False \ -DCMAKE_INSTALL_PREFIX:PATH=/usr \ -DJAVA_HOME:PATH=/usr/lib/jvm/default-java \ -DPROTOBUF_ROOT_DIR:PATH=/usr \ -DCMAKE_LIBRARY_ARCHITECTURE:STRING=x86_64-linux-gnu cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DBUILD_JAVA:BOOL=False -DCMAKE_INSTALL_PREFIX:PATH=/usr -DJAVA_HOME:PATH=/usr/lib/jvm/default-java -DPROTOBUF_ROOT_DIR:PATH=/usr -DCMAKE_LIBRARY_ARCHITECTURE:STRING=x86_64-linux-gnu .. -- The C compiler identification is GNU 15.2.0 -- The CXX compiler identification is GNU 15.2.0 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.17.0-rc2") -- Looking for lzma_auto_decoder in /usr/lib/x86_64-linux-gnu/liblzma.so -- Looking for lzma_auto_decoder in /usr/lib/x86_64-linux-gnu/liblzma.so - found -- Looking for lzma_easy_encoder in /usr/lib/x86_64-linux-gnu/liblzma.so -- Looking for lzma_easy_encoder in /usr/lib/x86_64-linux-gnu/liblzma.so - found -- Looking for lzma_lzma_preset in /usr/lib/x86_64-linux-gnu/liblzma.so -- Looking for lzma_lzma_preset in /usr/lib/x86_64-linux-gnu/liblzma.so - found -- Found LibLZMA: /usr/lib/x86_64-linux-gnu/liblzma.so (found version "5.8.1") CMake Deprecation Warning at genomicsdb-tiledb/CMakeLists.txt:29 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.3.1") -- Found libuuid: /usr/include -- Found OpenSSL: /usr/lib/x86_64-linux-gnu/libcrypto.so (found version "3.5.4") -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.17.0-rc2") -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- The TileDB library is compiled with verbosity. -- Found Catch2: /catch2/catch_all.hpp Version=3 -- GenomicsDB version=1.5.4 full_version=1.5.4-SNAPSHOT- -- CMAKE_BUILD_TYPE=None -- Performing Test test_cpp_2011 -- Performing Test test_cpp_2011 - Success -- Performing Test test_stack_protector_strong -- Performing Test test_stack_protector_strong - Success -- Found MPI_C: /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI_CXX: /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI: TRUE (found version "3.1") -- Performing Test OPENMPV4_FOUND -- Performing Test OPENMPV4_FOUND - Success -- Performing Test STRING_VIEW_FOUND -- Performing Test STRING_VIEW_FOUND - Success -- string_view found -- RapidJSON found. Headers: /usr/include -- Found Spdlog: /usr/include -- Try finding Protobuf Library -- Could not find libcsv headers and/or libraries (missing: LIBCSV_LIBRARY LIBCSV_INCLUDE_DIR) -- Could not find safestring headers and/or libraries (missing: SAFESTRINGLIB_INCLUDE_DIR SAFESTRINGLIB_LIBRARY) CMake Warning (dev) at src/test/cpp/CMakeLists.txt:85 (add_custom_command): The following keywords are not supported when using add_custom_command(TARGET): DEPENDS. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at src/test/cpp/CMakeLists.txt:85 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Configuring done (26.5s) -- Generating done (8.0s) CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY FETCHCONTENT_FULLY_DISCONNECTED -- Build files have been written to: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' debian/rules override_dh_auto_configure-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Preparing the build of the htslib component. cp debian/htslibComponentFiles/* genomicsdb-htslib/ echo '#define HTS_VERSION_TEXT ""' > genomicsdb-htslib/version.h # Configuring the C++ part using CMake. dh_auto_configure -- \ -DBUILD_JAVA:BOOL=False \ -DCMAKE_INSTALL_PREFIX:PATH=/usr \ -DJAVA_HOME:PATH=/usr/lib/jvm/default-java \ -DPROTOBUF_ROOT_DIR:PATH=/usr \ -DCMAKE_LIBRARY_ARCHITECTURE:STRING=x86_64-linux-gnu cd obj-x86_64-linux-gnu && DEB_PYTHON_INSTALL_LAYOUT=deb PKG_CONFIG=/usr/bin/pkg-config cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DBUILD_JAVA:BOOL=False -DCMAKE_INSTALL_PREFIX:PATH=/usr -DJAVA_HOME:PATH=/usr/lib/jvm/default-java -DPROTOBUF_ROOT_DIR:PATH=/usr -DCMAKE_LIBRARY_ARCHITECTURE:STRING=x86_64-linux-gnu .. -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.17.0-rc2") CMake Deprecation Warning at genomicsdb-tiledb/CMakeLists.txt:29 (cmake_minimum_required): Compatibility with CMake < 3.10 will be removed from a future version of CMake. Update the VERSION argument value. Or, use the ... syntax to tell CMake that the project requires at least but has been updated to work with policies introduced by or earlier. -- Found CURL: /usr/lib/x86_64-linux-gnu/libcurl.so (found version "8.17.0-rc2") -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- The TileDB library is compiled with verbosity. -- Found Catch2: /catch2/catch_all.hpp Version=3 -- GenomicsDB version=1.5.4 full_version=1.5.4-SNAPSHOT- -- CMAKE_BUILD_TYPE=None -- string_view found -- RapidJSON found. Headers: /usr/include -- Try finding Protobuf Library -- Could not find libcsv headers and/or libraries (missing: LIBCSV_LIBRARY LIBCSV_INCLUDE_DIR) -- Could not find safestring headers and/or libraries (missing: SAFESTRINGLIB_INCLUDE_DIR SAFESTRINGLIB_LIBRARY) CMake Warning (dev) at src/test/cpp/CMakeLists.txt:85 (add_custom_command): The following keywords are not supported when using add_custom_command(TARGET): DEPENDS. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at src/test/cpp/CMakeLists.txt:85 (add_custom_command): Exactly one of PRE_BUILD, PRE_LINK, or POST_BUILD must be given. Assuming POST_BUILD to preserve backward compatibility. Policy CMP0175 is not set: add_custom_command() rejects invalid arguments. Run "cmake --help-policy CMP0175" for policy details. Use the cmake_policy command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. -- Configuring done (4.3s) -- Generating done (9.0s) -- Build files have been written to: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu # Configuring the Java part using Maven. # First we put the arch triplet in d/maven.properties for the tests. echo "build.triplet=x86_64-linux-gnu" > debian/maven.properties mv pom.xml pom.xml.old sed 's/\${genomicsdb\.version}/1.5.5/; s,\${protoc\.filepath},/usr/bin/protoc,' pom.xml.old > pom.xml dh_auto_configure --buildsystem=maven skip faking of existing gnu-getopt:getopt::debian mh_patchpoms -plibgenomicsdb-java --debian-build --keep-pom-version --maven-repo=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_linkjars -O--buildsystem=cmake Duplicate specification "u=s" for option "u" debian/rules override_dh_auto_build-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_build cd obj-x86_64-linux-gnu && make -j42 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/depend make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/depend make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build make[4]: Nothing to be done for 'CMakeFiles/protobuf_ep.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 0%] Built target protobuf_ep make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/resources /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/DependInfo.cmake "--color=" [ 1%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.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-1.5.5/genomicsdb-tiledb/core/src/array/array.cc [ 1%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec.cc [ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o [ 1%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_read_state.cc [ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_schema.cc [ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o [ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o [ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_iterator.cc make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build [ 3%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o [ 3%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 3%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o [ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_sorted_read_state.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_blosc.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter.cc [ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter_bit_shuffle.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter_delta_encode.cc [ 6%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o [ 6%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o [ 6%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o [ 6%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_sorted_write_state.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_gzip.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_lz4.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_rle.cc [ 6%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_zstd.cc [ 6%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle/bitshuffle_core.c [ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o -MF CMakeFiles/genomicsdb-hts.dir/kfunc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/kfunc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/kfunc.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle/iochain.c [ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/knetfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/knetfile.c [ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o [ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o [ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -MF CMakeFiles/genomicsdb-hts.dir/bgzf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/bgzf.c [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o -MF CMakeFiles/genomicsdb-hts.dir/kstring.c.o.d -o CMakeFiles/genomicsdb-hts.dir/kstring.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/kstring.c [ 8%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o [ 9%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o [ 9%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o [ 9%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/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-1.5.5/genomicsdb-htslib/bcf_sr_sort.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o -MF CMakeFiles/genomicsdb-hts.dir/errmod.c.o.d -o CMakeFiles/genomicsdb-hts.dir/errmod.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/errmod.c [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o [ 9%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o -MF CMakeFiles/genomicsdb-hts.dir/header.c.o.d -o CMakeFiles/genomicsdb-hts.dir/header.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/header.c [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/faidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/faidx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/faidx.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/expressions/expression.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile.c [ 10%] Generating source/header files from .proto files cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o cd /build/reproducible-path/genomicsdb-1.5.5/src/resources && /usr/bin/protoc --cpp_out=/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources genomicsdb_coordinates.proto genomicsdb_callsets_mapping.proto genomicsdb_export_config.proto genomicsdb_import_config.proto genomicsdb_vid_mapping.proto cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/fragment.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_net.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o -MF CMakeFiles/genomicsdb-hts.dir/hts.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hts.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hts.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/read_state.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -MF CMakeFiles/genomicsdb-hts.dir/hts_os.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hts_os.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o -MF CMakeFiles/genomicsdb-hts.dir/md5.c.o.d -o CMakeFiles/genomicsdb-hts.dir/md5.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/md5.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o -MF CMakeFiles/genomicsdb-hts.dir/probaln.c.o.d -o CMakeFiles/genomicsdb-hts.dir/probaln.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/probaln.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o -MF CMakeFiles/genomicsdb-hts.dir/realn.c.o.d -o CMakeFiles/genomicsdb-hts.dir/realn.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/realn.c [ 11%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o [ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/book_keeping.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o -MF CMakeFiles/genomicsdb-hts.dir/multipart.c.o.d -o CMakeFiles/genomicsdb-hts.dir/multipart.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/multipart.c [ 13%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/write_state.cc [ 13%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata.cc [ 13%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata_iterator.cc [ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/regidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/regidx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/regidx.c [ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/error.cc [ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o -MF CMakeFiles/genomicsdb-hts.dir/region.c.o.d -o CMakeFiles/genomicsdb-hts.dir/region.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/region.c [ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o -MF CMakeFiles/genomicsdb-hts.dir/sam.c.o.d -o CMakeFiles/genomicsdb-hts.dir/sam.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/sam.c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c: In function 'libcurl_open': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c:1335:9: warning: 'CURLINFO_CONTENT_LENGTH_DOWNLOAD' is deprecated: since 7.55.0. Use CURLINFO_CONTENT_LENGTH_DOWNLOAD_T [-Wdeprecated-declarations] 1335 | if (curl_easy_getinfo(fp->easy, CURLINFO_CONTENT_LENGTH_DOWNLOAD, | ^~ In file included from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c:47: /usr/include/x86_64-linux-gnu/curl/curl.h:2932:3: note: declared here 2932 | CURLINFO_CONTENT_LENGTH_DOWNLOAD | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/hilbert_curve.cc [ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -MF CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o.d -o CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/synced_bcf_reader.c [ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf_sweep.c make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 16%] Built target PROTOBUF_GENERATED_CXX_TARGET [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/mem_utils.cc [ 17%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/progress_bar.cc make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/depend [ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o -MF CMakeFiles/genomicsdb-hts.dir/tbx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/tbx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/tbx.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 17%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o -MF 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 /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc [ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/textutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/textutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/textutils.c [ 17%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/uri.cc [ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf.c [ 18%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -MF CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o.d -o CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/thread_pool.c [ 18%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcfutils.c [ 18%] 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc [ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/utils.cc [ 18%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations_columnar.cc [ 19%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc [ 20%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_codecs.c [ 20%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc [ 20%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_decode.c [ 21%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o [ 21%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_storage_manager.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_cell.cc [ 21%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o [ 21%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc [ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_handler.cc [ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant.cc [ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_buffer.cc [ 23%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_encode.c [ 23%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc [ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_fs.cc [ 24%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc [ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_external.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 24%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc: In function 'int tiledb_array_set_schema(TileDB_ArraySchema*, const char*, const char**, int, int64_t, int, const int*, const int*, const int*, const int*, const int*, int, const char**, int, const void*, size_t, const void*, size_t, int, const int*)': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:409:22: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 409 | (int*) malloc((attribute_num)*sizeof(int)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/15/cstdlib:83, from /usr/include/c++/15/ext/string_conversions.h:45, from /usr/include/c++/15/bits/basic_string.h:4444, from /usr/include/c++/15/string:56, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api/tiledb.h:44, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:36: /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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:440:62: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 440 | tiledb_array_schema->offsets_compression_ = (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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:440:62: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 440 | tiledb_array_schema->offsets_compression_ = (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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:448:68: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 448 | tiledb_array_schema->offsets_compression_level_ = (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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:448:68: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 448 | tiledb_array_schema->offsets_compression_level_ = (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__ | ^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:440:62: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 440 | tiledb_array_schema->offsets_compression_ = (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__ | ^~~~~~ [ 25%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o [ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_index.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_cell.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations_columnar.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_io.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_handler.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 25%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_samtools.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_storage_manager.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:28: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 26%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_stats.c [ 26%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/mFILE.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_array_schema.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 26%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/open_trace_file.c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc: In function 'int tiledb_metadata_set_schema(TileDB_MetadataSchema*, const char*, const char**, int, int64_t, const int*, const int*, const int*, const int*)': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:1131:22: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1131 | (int*) malloc((attribute_num)*sizeof(int)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /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__ | ^~~~~~ [ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc [ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc [ 27%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager_config.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_construct.h:61, from /usr/include/c++/15/bits/stl_tempbuf.h:61, from /usr/include/c++/15/memory:68, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 28%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_posixfs.cc [ 28%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4/lz4.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/gt_remapper.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/gt_remapper_template_definition.h:25, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 28%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/genomicsdb_importer.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 28%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_file_base.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_INFO_fields(const Variant&)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:622:37: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 622 | auto stringified = std::move(m_field_handlers[bcf_ht_type]->stringify_2D_vector(*(BCF_INFO_GET_FIELD_INFO_PTR(curr_tuple)))); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:622:37: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:643:34: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_deletions(Variant&)': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:1106:37: note: remove 'std::move' call [ 29%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/pooled_alloc.c [ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc [ 30%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/rANS_static.c [ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/memory_measure.cc [ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/histogram.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc: In member function 'virtual void AlleleCountOperator::operate_on_columnar_cell(const GenomicsDBColumnarCell&, const VariantQueryConfig&, const VariantArraySchema&)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:984:36: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 984 | auto REF_ALT_pair = std::move(std::pair( | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 985 | std::string(REF_ptr, REF_length), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 986 | std::string(ALT_ptr+m_cell_ALT_offsets[ALT_idx], | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 987 | m_cell_ALT_offsets[ALT_idx+1]-m_cell_ALT_offsets[ALT_idx]-1))); //-1 to ignore delim char | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:984:36: note: remove 'std::move' call [ 30%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/string_alloc.c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc: In member function 'std::vector GenomicsDBMultiDVectorField::parse_and_store_numeric(const char*, size_t)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 436 | auto total_size_of_multi_d_data_vec = std::move(GenomicsDBMultiDVectorField::parse_and_store_numeric( | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 437 | m_rw_field_data, *m_field_info_ptr, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 438 | str, str_length)); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:32: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_file_base.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_text_file.h:33, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:30: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_pb.cc [ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/lut.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc [ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_sql.cc [ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/timer.cc [ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/genomicsdb_logger.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/genomicsdb_importer.h:25, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/genomicsdb_importer.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf_adapter.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc [ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf2binary.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc:27: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/known_field_info.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building C object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cc -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/hfile_genomicsdb.c [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/htslib_fs_adapter.cc [ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/variant_query_config.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc:27: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_algobase.h:65, from /usr/include/c++/15/bits/specfun.h:43, from /usr/include/c++/15/cmath:3913, from /usr/include/fmt/format.h:36, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:33: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/alleles_combiner.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/alleles_combiner_template_definition.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/pb_config.cc [ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/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-1.5.5/src/main/cpp/src/api/annotation_service.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void VidMapper::parse_string_length_descriptor(const char*, const char*, size_t, FieldLengthDescriptor&, size_t)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:757:47: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 757 | auto length_value_upper_case_str = std::move(std::string(length_value_str)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:757:47: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void FileBasedVidMapper::common_constructor_initialization(const rapidjson::Value&)': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:1269:40: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/variant_query_config.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_algobase.h:65, from /usr/include/c++/15/algorithm:62, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/variant_query_config.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf2binary.cc:29: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/vcf2binary.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf2binary.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc [ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_field.cc [ 38%] Linking C shared library libgenomicsdb-hts.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdb-hts.dir/link.txt --verbose=1 /usr/bin/cc -fPIC -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--dependency-file=CMakeFiles/genomicsdb-hts.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libgenomicsdb-hts.so -o libgenomicsdb-hts.so "CMakeFiles/genomicsdb-hts.dir/kfunc.c.o" "CMakeFiles/genomicsdb-hts.dir/knetfile.c.o" "CMakeFiles/genomicsdb-hts.dir/kstring.c.o" "CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o" "CMakeFiles/genomicsdb-hts.dir/bgzf.c.o" "CMakeFiles/genomicsdb-hts.dir/errmod.c.o" "CMakeFiles/genomicsdb-hts.dir/faidx.c.o" "CMakeFiles/genomicsdb-hts.dir/header.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o" "CMakeFiles/genomicsdb-hts.dir/hts.c.o" "CMakeFiles/genomicsdb-hts.dir/hts_os.c.o" "CMakeFiles/genomicsdb-hts.dir/md5.c.o" "CMakeFiles/genomicsdb-hts.dir/multipart.c.o" "CMakeFiles/genomicsdb-hts.dir/probaln.c.o" "CMakeFiles/genomicsdb-hts.dir/realn.c.o" "CMakeFiles/genomicsdb-hts.dir/regidx.c.o" "CMakeFiles/genomicsdb-hts.dir/region.c.o" "CMakeFiles/genomicsdb-hts.dir/sam.c.o" "CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o" "CMakeFiles/genomicsdb-hts.dir/tbx.c.o" "CMakeFiles/genomicsdb-hts.dir/textutils.c.o" "CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf.c.o" "CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o" /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 38%] Built target genomicsdb-hts [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_plink.cc [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_utils.cc [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_json_processor.cc [ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_coordinates.pb.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc: In member function 'const bool GenomicsDBConfigBase::has_array_name(int) const': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc:101:53: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'const int' [-Wsign-compare] 101 | (!m_single_array_name && m_array_names.size() > rank)) { | ~~~~~~~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc: In member function 'rapidjson::Document GenomicsDBConfigBase::read_from_file(const std::string&, int)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc:193:43: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 193 | rapidjson::Document json_doc = std::move(parse_json_file(filename)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc:193:43: note: remove 'std::move' call [ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc: In member function 'void GenomicsDBImportConfig::read_from_file(const std::string&, int)': /build/reproducible-path/genomicsdb-1.5.5/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)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_callsets_mapping.pb.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc:704:43: note: remove 'std::move' call [ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_export_config.pb.cc [ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_import_config.pb.cc [ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_vid_mapping.pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:46: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb_exception.h:37, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb.h:37, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:34: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_plink.cc:40: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb_exception.h:37, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb.h:37, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api/genomicsdb_plink.h:35, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_plink.cc:34: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 40%] Linking CXX static library libgenomicsdb-tiledb.a cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -P CMakeFiles/tiledb_static.dir/cmake_clean_target.cmake [ 41%] Linking CXX shared library libgenomicsdb-tiledb.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_shared.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_static.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,--dependency-file=CMakeFiles/tiledb_shared.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libgenomicsdb-tiledb.so -o libgenomicsdb-tiledb.so CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o 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-1.5.5/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 CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o 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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 41%] Built target tiledb_static make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu 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genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o [ 42%] Building CXX object 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -MF CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o.d -o CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_array_schema.cc [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -MF CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d -o CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -MF CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d -o CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_dense_array_api.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -MF CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d -o CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_book_keeping.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -MF CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d -o CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -MF CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o.d -o CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -MF CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d -o CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/expressions/test_expressions.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -MF CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d -o CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec_filter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -MF CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d -o CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/array/test_array_schema.cc [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -MF CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d -o CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_tiledb_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -MF CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o.d -o CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_sparse_array_api.cc [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o [ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -MF CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o.d -o CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_mem_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -MF CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o.d -o CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/expressions/test_filter_api.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -MF CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d -o CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -MF CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o.d -o CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_uri.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 45%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -MF CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o.d -o CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc [ 46%] Linking CXX executable test_print_array_schema cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_array_schema.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 47%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -MF CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o.d -o CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/storage_manager/test_posixfs.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -MF CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o.d -o CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/storage_manager/test_storage_buffer.cc [ 47%] Linking CXX executable test_print_book_keeping cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_book_keeping.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_print_array_schema.dir/link.d 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/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 47%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -MF CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o.d -o CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_3d.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_print_book_keeping.dir/link.d CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -o test_print_book_keeping ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 47%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -MF CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o.d -o CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_aio_read_dense.cc [ 47%] Built target test_print_book_keeping make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 48%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -MF CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d -o CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_aio_write_dense.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 48%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -MF CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o.d -o CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_consolidate.cc [ 48%] Linking CXX executable tiledb_array_aio_read_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_read_dense.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 49%] Linking CXX executable tiledb_array_3d cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_3d.dir/link.txt --verbose=1 [ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -MF CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d -o CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_create_dense.cc [ 49%] Linking CXX executable tiledb_array_aio_write_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_write_dense.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -MF CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d -o CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_create_sparse.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/DependInfo.cmake "--color=" [ 50%] Linking CXX executable tiledb_array_consolidate cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_consolidate.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 50%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -MF CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o.d -o CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_dense.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_aio_read_dense.dir/link.d CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -o tiledb_array_aio_read_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 50%] Built target tiledb_array_aio_read_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make 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directory '/build/reproducible-path/genomicsdb-1.5.5/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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse.cc [ 52%] Linking CXX executable tiledb_array_create_sparse cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_sparse.dir/link.txt --verbose=1 [ 52%] Linking CXX executable tiledb_array_iterator_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_dense.dir/link.txt --verbose=1 [ 52%] Linking CXX executable tiledb_array_create_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_dense.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_3d.dir/link.d CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -o tiledb_array_3d ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 52%] Built target tiledb_array_3d make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make 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genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse_filter.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_aio_write_dense.dir/link.d CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -o tiledb_array_aio_write_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 52%] Built target tiledb_array_aio_write_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" [ 52%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -MF CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d -o CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_dense.cc [ 52%] Built target tiledb_array_consolidate make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 53%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -MF CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d -o CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_sparse.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 53%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -MF CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_1.cc [ 53%] Linking CXX executable tiledb_array_iterator_sparse cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse.dir/link.txt --verbose=1 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" [ 54%] Linking CXX executable tiledb_array_iterator_sparse_filter cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_2.cc [ 55%] Linking CXX executable tiledb_array_parallel_consolidate_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_create_sparse.dir/link.d CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -o tiledb_array_create_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Built target tiledb_array_create_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" [ 55%] Linking CXX executable tiledb_array_parallel_read_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_create_dense.dir/link.d CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -o tiledb_array_create_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build [ 55%] Built target tiledb_array_create_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' [ 55%] 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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -MF CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_mpi_io_dense.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_1.cc [ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o [ 56%] Linking CXX executable test_array_schema cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_2.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema.dir/link.txt --verbose=1 [ 56%] Linking CXX executable tiledb_array_parallel_consolidate_sparse cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.txt --verbose=1 [ 56%] Linking CXX executable test_mem_utils /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_dense.dir/link.d CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -o tiledb_array_iterator_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mem_utils.dir/link.txt --verbose=1 [ 56%] Built target tiledb_array_iterator_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_1.cc [ 56%] Linking CXX executable tiledb_array_parallel_read_dense_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -o tiledb_array_iterator_sparse_filter ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 56%] Built target tiledb_array_iterator_sparse_filter make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_2.cc [ 56%] Linking CXX executable tiledb_array_parallel_read_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.txt --verbose=1 [ 56%] Linking CXX executable tiledb_array_parallel_read_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse.dir/link.d CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -o tiledb_array_iterator_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 56%] Built target tiledb_array_iterator_sparse 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_1.cc [ 57%] Linking CXX executable tiledb_array_parallel_read_mpi_io_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_mem_utils.dir/link.d CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -o test_mem_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -o tiledb_array_parallel_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 57%] Built target test_mem_utils [ 57%] Built target tiledb_array_parallel_read_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.d CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -o tiledb_array_parallel_consolidate_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_2.cc [ 57%] Built target tiledb_array_parallel_consolidate_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -MF CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d -o CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_primitive.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -MF CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o.d -o CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_1.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.d CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -o tiledb_array_parallel_read_mpi_io_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 58%] Built target tiledb_array_parallel_read_mpi_io_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -MF CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d -o CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_2.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -o tiledb_array_parallel_consolidate_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 58%] Built target tiledb_array_parallel_consolidate_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 59%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -MF CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d -o CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_3.cc [ 60%] Linking CXX executable tiledb_array_parallel_write_dense_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -o tiledb_array_parallel_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 60%] Built target tiledb_array_parallel_read_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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 60%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_sorted.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema.dir/link.d CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -o test_array_schema ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 60%] Linking CXX executable tiledb_array_parallel_write_dense_2 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 60%] Built target test_array_schema make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 61%] Linking CXX executable tiledb_array_read_dense_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_1.dir/link.txt --verbose=1 [ 62%] Linking CXX executable tiledb_array_parallel_write_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.txt --verbose=1 [ 62%] Linking CXX executable tiledb_array_parallel_write_sparse_2 [ 62%] Built target tiledb_array_parallel_read_sparse_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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -o tiledb_array_parallel_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_1.cc [ 62%] Linking CXX executable tiledb_array_primitive cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_primitive.dir/link.txt --verbose=1 [ 62%] Built target tiledb_array_parallel_read_sparse_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_2.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" [ 62%] Linking CXX executable tiledb_array_read_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_2.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_1.cc [ 62%] Linking CXX executable tiledb_array_read_dense_3 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_3.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -o tiledb_array_parallel_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx [ 63%] Linking CXX executable test_codec cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 63%] Built target tiledb_array_parallel_write_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 64%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_2.cc [ 65%] Linking CXX executable tiledb_array_read_dense_sorted cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_sorted.dir/link.txt --verbose=1 [ 65%] Linking CXX executable tiledb_array_read_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' [ 65%] 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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 66%] Linking CXX executable tiledb_array_read_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_2.dir/link.txt --verbose=1 [ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -MF CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_sorted.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -o tiledb_array_parallel_write_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 66%] Built target tiledb_array_parallel_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" [ 66%] Linking CXX executable tiledb_array_read_sparse_filter_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -MF CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d -o CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_1.cc [ 66%] Linking CXX executable tiledb_array_read_sparse_filter_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_2.dir/link.d CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -o tiledb_array_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_1.dir/link.d CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -o tiledb_array_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_codec.dir/link.d CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -o test_codec ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_primitive.dir/link.d CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -o tiledb_array_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" [ 66%] Linking CXX executable test_codec_filter cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec_filter.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build [ 66%] Built target tiledb_array_read_dense_2 [ 66%] Built target test_codec make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 66%] Built target tiledb_array_read_dense_1 [ 66%] Built target tiledb_array_primitive make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend [ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -MF CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d -o CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_2.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o [ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o [ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -MF CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_1.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -MF CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_2.cc [ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_sorted.dir/link.d CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -o tiledb_array_read_dense_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_2.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -o tiledb_array_parallel_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 68%] Built target tiledb_array_read_dense_sorted [ 68%] Built target tiledb_array_parallel_write_sparse_1 In file included from /usr/include/c++/15/bits/basic_string.h:51, from /usr/include/c++/15/string:56: 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++/15/string_view:340:25, inlined from 'std::string_view get_segment(std::string_view, int)' at /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:819:20: /usr/include/c++/15/string_view:74:5: warning: 'pos' may be used uninitialized [-Wmaybe-uninitialized] 74 | if (__pos > __size) | ^~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc: In function 'std::string_view get_segment(std::string_view, int)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:806:26: note: 'pos' was declared here 806 | std::string::size_type pos; | ^~~ make -f genomicsdb-tiledb/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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -o tiledb_array_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_3.dir/link.d CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -o tiledb_array_read_dense_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_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]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 69%] Linking CXX executable tiledb_array_read_sparse_sorted [ 69%] Built target tiledb_array_read_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o [ 70%] Built target tiledb_array_read_dense_3 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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_sorted.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" [ 70%] Built target test_codec_filter [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o 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 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_1.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_2.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" [ 70%] Linking CXX executable tiledb_array_update_dense_1 [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -MF CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_3.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_1.dir/link.txt --verbose=1 [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -MF CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_4.cc [ 70%] Linking CXX executable tiledb_array_update_dense_2 [ 70%] Linking CXX executable tiledb_array_update_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_2.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -o tiledb_array_read_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 71%] Linking CXX executable tiledb_array_write_dense_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_2.dir/link.txt --verbose=1 [ 71%] Linking CXX executable tiledb_array_write_dense_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_1.dir/link.txt --verbose=1 [ 71%] Linking CXX executable tiledb_array_update_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_1.dir/link.txt --verbose=1 [ 71%] Built target tiledb_array_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -MF CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d -o CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_catching_errors.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -o tiledb_array_read_sparse_filter_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 72%] Built target tiledb_array_read_sparse_filter_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -MF CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d -o CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_clear_delete_move.cc [ 72%] Linking CXX executable tiledb_array_write_dense_sorted make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_sorted.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -o tiledb_array_read_sparse_filter_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -MF CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d -o CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_config.cc [ 72%] Built target tiledb_array_read_sparse_filter_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 72%] Linking CXX executable tiledb_array_write_sparse_4 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_4.dir/link.txt --verbose=1 [ 73%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -MF CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d -o CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_delete.cc [ 73%] Linking CXX executable test_filter_api cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_filter_api.dir/link.txt --verbose=1 [ 74%] Linking CXX executable tiledb_array_write_sparse_3 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_3.dir/link.txt --verbose=1 [ 74%] Linking CXX executable tiledb_array_write_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -o tiledb_array_read_sparse_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_dense_1.dir/link.d CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -o tiledb_array_update_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 74%] Built target tiledb_array_update_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend [ 75%] Linking CXX executable tiledb_array_write_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" [ 75%] Built target tiledb_array_read_sparse_sorted cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_1.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -MF CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d -o CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_ls.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" [ 76%] Linking CXX executable tiledb_clear_delete_move make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script 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-I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -MF CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d -o CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_ls_workspaces.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_sparse_2.dir/link.d CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -o tiledb_array_update_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 76%] Built target tiledb_array_update_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_sparse_1.dir/link.d CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -o tiledb_array_update_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' [ 76%] Built target tiledb_array_update_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/depend make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" [ 76%] Built target tiledb_array_update_dense_2 [ 76%] Built target tiledb_array_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -MF CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d -o CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_consolidate.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -MF CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d -o CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_create.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -MF CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d -o CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_iterator.cc [ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -MF CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d -o CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_primitive.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_sorted.dir/link.d CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -o tiledb_array_write_dense_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_1.dir/link.d CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -o tiledb_array_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 77%] Built target tiledb_array_write_dense_sorted make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend [ 77%] Linking CXX executable test_uri cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_uri.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_3.dir/link.d CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -o tiledb_array_write_sparse_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx [ 77%] Built target tiledb_array_write_dense_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -MF CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d -o CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_read.cc [ 77%] Linking CXX executable tiledb_delete cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_delete.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build [ 77%] Built target tiledb_array_write_sparse_3 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_4.dir/link.d CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -o tiledb_array_write_sparse_4 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" [ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -MF CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o.d -o CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_update.cc [ 78%] Built target tiledb_array_write_sparse_4 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_2.dir/link.d CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -o tiledb_array_write_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -MF CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d -o CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_write.cc [ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o [ 78%] Built target tiledb_array_write_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -MF CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o.d -o CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_workspace_group_create.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_uri.dir/link.d CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -o test_uri ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Built target test_uri /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_filter_api.dir/link.d CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -o test_filter_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Built target test_filter_api [ 78%] Linking CXX executable tiledb_ls_workspaces cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls_workspaces.dir/link.txt --verbose=1 [ 78%] Linking CXX executable tiledb_metadata_iterator cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_iterator.dir/link.txt --verbose=1 [ 79%] Linking CXX executable tiledb_ls /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_clear_delete_move.dir/link.d CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -o tiledb_clear_delete_move ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 80%] Linking CXX executable tiledb_metadata_primitive cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_primitive.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_config.dir/link.d CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -o tiledb_config ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 80%] Built target tiledb_clear_delete_move [ 80%] Linking CXX executable tiledb_metadata_create cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_create.dir/link.txt --verbose=1 [ 80%] Built target tiledb_config /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -o tiledb_array_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_catching_errors.dir/link.d CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -o tiledb_catching_errors ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 81%] Linking CXX executable tiledb_metadata_consolidate [ 81%] Built target tiledb_array_write_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_consolidate.dir/link.txt --verbose=1 [ 81%] Built target tiledb_catching_errors In file included from /usr/include/string.h:548, from /usr/include/c++/15/cstring:48, 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-1.5.5/genomicsdb-tiledb/test/include/catch2/catch.h:39, from /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ [ 81%] Linking CXX executable tiledb_metadata_read cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_read.dir/link.txt --verbose=1 [ 81%] Linking CXX executable tiledb_metadata_update cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_update.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls.dir/link.d CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -o tiledb_ls ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 81%] Linking CXX executable tiledb_metadata_write cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_write.dir/link.txt --verbose=1 [ 81%] Built target tiledb_ls /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls_workspaces.dir/link.d CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -o tiledb_ls_workspaces ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 81%] Built target tiledb_ls_workspaces /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_delete.dir/link.d CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -o tiledb_delete ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_iterator.dir/link.d CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -o tiledb_metadata_iterator ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_delete [ 82%] Built target tiledb_metadata_iterator [ 82%] Linking CXX executable tiledb_workspace_group_create cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_workspace_group_create.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_primitive.dir/link.d CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -o tiledb_metadata_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_metadata_primitive /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_create.dir/link.d CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -o tiledb_metadata_create ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_consolidate.dir/link.d CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -o tiledb_metadata_consolidate ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_metadata_create [ 82%] Built target tiledb_metadata_consolidate /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_read.dir/link.d CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -o tiledb_metadata_read ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_metadata_read In file included from /usr/include/x86_64-linux-gnu/c++/15/bits/c++allocator.h:33, from /usr/include/c++/15/bits/allocator.h:46, from /usr/include/c++/15/string:45, 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-1.5.5/genomicsdb-tiledb/test/include/catch2/catch.h:39, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc:34: In member function 'void std::__new_allocator<_Tp>::deallocate(_Tp*, size_type) [with _Tp = std::__cxx11::basic_string]', inlined from 'static void std::allocator_traits >::deallocate(allocator_type&, pointer, size_type) [with _Tp = std::__cxx11::basic_string]' at /usr/include/c++/15/bits/alloc_traits.h:649:23, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_deallocate(pointer, std::size_t) [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:396:19, inlined from 'void std::_Vector_base<_Tp, _Alloc>::_M_deallocate(pointer, std::size_t) [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:392:7, inlined from 'std::_Vector_base<_Tp, _Alloc>::~_Vector_base() [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:375:15, inlined from 'std::vector<_Tp, _Alloc>::~vector() [with _Tp = std::__cxx11::basic_string; _Alloc = std::allocator >]' at /usr/include/c++/15/bits/stl_vector.h:805:7, inlined from 'std::string readable_size(size_t, bool)' at /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark/tiledb_benchmark.h:496:3: /usr/include/c++/15/bits/new_allocator.h:172:66: warning: 'void operator delete(void*, std::size_t)' called on pointer '__result' with nonzero offset 32 [-Wfree-nonheap-object] 172 | _GLIBCXX_OPERATOR_DELETE(_GLIBCXX_SIZED_DEALLOC(__p, __n)); | ^ In file included from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc:36: /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark/tiledb_benchmark.h: In function 'std::string readable_size(size_t, bool)': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark/tiledb_benchmark.h:483:13: note: declared here 483 | std::string readable_size(size_t size, bool human_readable_sizes) { | ^~~~~~~~~~~~~ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_update.dir/link.d CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -o tiledb_metadata_update ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_metadata_update /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_write.dir/link.d CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -o tiledb_metadata_write ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_metadata_write /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_workspace_group_create.dir/link.d CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -o tiledb_workspace_group_create ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_workspace_group_create [ 83%] Linking CXX executable test_array_iterator cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_iterator.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_iterator.dir/link.d CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -o test_array_iterator ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 83%] Built target test_array_iterator [ 83%] Linking CXX executable test_storage_buffer cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_storage_buffer.dir/link.txt --verbose=1 [ 84%] Linking CXX executable test_sparse_array_benchmark cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sparse_array_benchmark.dir/link.txt --verbose=1 [ 84%] Linking CXX executable test_array_schema_api cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema_api.dir/link.txt --verbose=1 [ 85%] Linking CXX executable test_dense_array_api /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_storage_buffer.dir/link.d CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -o test_storage_buffer ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_dense_array_api.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_sparse_array_benchmark.dir/link.d CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -o test_sparse_array_benchmark ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 85%] Built target test_storage_buffer [ 85%] Built target test_sparse_array_benchmark [ 85%] Linking CXX executable test_utils cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_utils.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema_api.dir/link.d CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -o test_array_schema_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Linking CXX executable test_tiledb_utils cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tiledb_utils.dir/link.txt --verbose=1 [ 86%] Built target test_array_schema_api /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_dense_array_api.dir/link.d CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -o test_dense_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target test_dense_array_api /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_utils.dir/link.d CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -o test_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target test_utils /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_tiledb_utils.dir/link.d CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -o test_tiledb_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target test_tiledb_utils [ 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Linking CXX static library libgenomicsdb.a [ 86%] Linking CXX shared library libgenomicsdb.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledbgenomicsdb.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -P CMakeFiles/genomicsdb.dir/cmake_clean_target.cmake /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,--dependency-file=CMakeFiles/tiledbgenomicsdb.dir/link.d -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -shared -Wl,-soname,libgenomicsdb.so.1 -o libgenomicsdb.so.1.5.4 CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o 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CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsetsct_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -Wl,-rpath,/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core: /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_symlink_library libgenomicsdb.so.1.5.4 libgenomicsdb.so.1 libgenomicsdb.so make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target tiledbgenomicsdb make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o [ 86%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.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_GenomicsDBQueryStream.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED 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-I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable 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-I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_jni_init.cc [ 87%] Linking CXX executable test_posixfs cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_posixfs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_posixfs.dir/link.d CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -o test_posixfs ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 87%] Built target test_posixfs In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:29: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api/tiledb.h:44, from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api/tiledb_utils.h:39, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/vcf2binary.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniInitializeGenomicsDBImporterObject(JNIEnv*, jobject, jstring, jint)': /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:102:3: warning: control reaches end of non-void function [-Wreturn-type] 102 | } | ^ /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniSetupGenomicsDBLoader(JNIEnv*, jobject, jlong, jstring)': /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:159:3: warning: control reaches end of non-void function [-Wreturn-type] 159 | } | ^ /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jboolean Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniImportBatch(JNIEnv*, jobject, jlong, jlongArray)': /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:231:3: warning: control reaches end of non-void function [-Wreturn-type] 231 | } | ^ [ 87%] Linking CXX executable test_sparse_array_api cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sparse_array_api.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_sparse_array_api.dir/link.d CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -o test_sparse_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 87%] Built target test_sparse_array_api [ 87%] Linking CXX executable test_expressions cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_expressions.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_expressions.dir/link.d CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -o test_expressions ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 87%] Built target test_expressions _mapping.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o /usr/bin/ranlib libgenomicsdb.a make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 87%] Built target genomicsdb 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-1.5.5/obj-x86_64-linux-gnu' make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" make -f 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-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" cd 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -MF CMakeFiles/ctests.dir/src/test_multid_vector.cc.o.d -o CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_multid_vector.cc [ 90%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o [ 91%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -MF CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o.d -o CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc [ 91%] Building CXX object tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o [ 91%] Building CXX object tools/CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o [ 91%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o [ 91%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -MF CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o.d -o CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc [ 91%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -MF CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o.d -o CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_genomicsdb_api.cc cd /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb 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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-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o -MF CMakeFiles/ctests.dir/src/test_logger.cc.o.d -o CMakeFiles/ctests.dir/src/test_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_logger.cc [ 93%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o [ 93%] Building CXX object tools/CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o [ 91%] Building CXX object tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o [ 94%] Building CXX object tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o -MF CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o.d -o CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_columnar_gvcf_iterator.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -MF CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o.d -o CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_htslib_plugin.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -MF CMakeFiles/ctests.dir/src/test_mem_utils.cc.o.d -o CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_mem_utils.cc [ 94%] Building CXX object example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_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-1.5.5/src/test/cpp/src/test_alleles_combiner.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -MF CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/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-1.5.5/tools/src/gt_mpi_gather.cc cd /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/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-1.5.5/tools/src/vcf_histogram.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o -MF CMakeFiles/ctests.dir/src/test_bgen.cc.o.d -o CMakeFiles/ctests.dir/src/test_bgen.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_bgen.cc [ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o -MF CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o.d -o CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o -MF CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o.d -o CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_gt_remapper.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o -MF CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d -o CMakeFiles/ctests.dir/src/test_query_variants.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_query_variants.cc [ 95%] Building CXX object example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -MF CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o.d -o CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:30: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:29: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_query_variants.cc:31: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, 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-1.5.5/src/test/cpp/src/test_query_variants.cc:28: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_multid_vector.cc:27: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, 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-1.5.5/src/test/cpp/src/test_multid_vector.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, 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-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_columnar_gvcf_iterator.cc:31: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, 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-1.5.5/src/test/cpp/src/test_columnar_gvcf_iterator.cc:29: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.5/tools/include/vcfdiff.h:31, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/tools/include/vcfdiff.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/genomicsdb_importer.h:25, from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_algobase.h:65, from /usr/include/c++/15/bits/hashtable_policy.h:36, from /usr/include/c++/15/bits/hashtable.h:37, from /usr/include/c++/15/bits/unordered_map.h:33, from /usr/include/c++/15/unordered_map:43, from /usr/include/c++/15/functional:65, from /usr/include/spdlog/common.h:13, from /usr/include/spdlog/spdlog.h:12, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/genomicsdb_logger.h:41, from /build/reproducible-path/genomicsdb-1.5.5/tools/include/common.h:27, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf_histogram.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, from /usr/include/c++/15/string:49, from /usr/include/c++/15/bits/locale_classes.h:42, from /usr/include/c++/15/bits/ios_base.h:43, from /usr/include/c++/15/ios:46, from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/vcf2binary.h:26, from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf_histogram.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In constructor 'VCFDiffFile::VCFDiffFile(const std::string&, const std::string&)': /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:83:41: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 83 | std::string field_name = std::move(std::string(bcf_hdr_int2id(m_hdr, BCF_DT_ID, i))); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:83:41: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In member function 'void VCFDiffFile::compare_line(const bcf_hdr_t*, bcf1_t*)': /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 591 | auto gold_ID_set = std::move(get_ID_set(gold_line)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 592 | auto test_ID_set = std::move(get_ID_set(m_line)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc: In function 'int main(int, char**)': /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:165:45: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 165 | auto loader_json_config_file = std::move(std::string(argv[optind])); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:165:45: note: remove 'std::move' call [ 95%] Linking CXX shared library libgenomicsdbjni.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdbjni.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,--dependency-file=CMakeFiles/genomicsdbjni.dir/link.d -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -shared -Wl,-soname,libgenomicsdbjni.so -o libgenomicsdbjni.so CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib libgenomicsdb.so.1.5.4 ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 95%] Built target genomicsdbjni [ 96%] Linking CXX executable test_genomicsdb_bcf_generator cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_bcf_generator.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -o test_genomicsdb_bcf_generator -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 96%] Built target test_genomicsdb_bcf_generator [ 96%] Linking CXX executable gt_mpi_gather cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/gt_mpi_gather.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/gt_mpi_gather.dir/link.d CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o -o gt_mpi_gather -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 96%] Built target gt_mpi_gather [ 96%] Linking CXX executable create_genomicsdb_workspace cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/create_genomicsdb_workspace.dir/link.txt --verbose=1 [ 97%] Linking CXX executable vcfdiff cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfdiff.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/create_genomicsdb_workspace.dir/link.d CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -o create_genomicsdb_workspace -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 97%] Built target create_genomicsdb_workspace [ 98%] Linking CXX executable consolidate_genomicsdb_array cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/consolidate_genomicsdb_array.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcfdiff.dir/link.d CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o -o vcfdiff -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 98%] Built target vcfdiff [ 98%] Linking CXX executable vcf_histogram cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf_histogram.dir/link.txt --verbose=1 [ 98%] Linking CXX executable test_genomicsdb_demo cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_demo.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/consolidate_genomicsdb_array.dir/link.d CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -o consolidate_genomicsdb_array -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 98%] Built target consolidate_genomicsdb_array /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf_histogram.dir/link.d CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o -o vcf_histogram -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 98%] Built target vcf_histogram [ 98%] Linking CXX executable test_genomicsdb_importer cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_importer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_demo.dir/link.d CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o -o test_genomicsdb_demo -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 98%] Built target test_genomicsdb_demo [ 99%] Linking CXX executable vcf2genomicsdb cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb.dir/link.txt --verbose=1 [ 99%] Linking CXX executable api_tests cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/api_tests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_importer.dir/link.d CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -o test_genomicsdb_importer -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 99%] Built target test_genomicsdb_importer /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf2genomicsdb.dir/link.d CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -o vcf2genomicsdb -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 99%] Built target vcf2genomicsdb /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/api_tests.dir/link.d CMakeFiles/api_tests.dir/src/ctest_main.cc.o CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -o api_tests -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E tar xzf /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/../inputs/test.tgz make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 99%] Built target api_tests [100%] Linking CXX executable ctests cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/ctests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/ctests.dir/link.d CMakeFiles/ctests.dir/src/ctest_main.cc.o CMakeFiles/ctests.dir/src/test_config.cc.o CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o CMakeFiles/ctests.dir/src/test_multid_vector.cc.o CMakeFiles/ctests.dir/src/test_pb.cc.o CMakeFiles/ctests.dir/src/test_logger.cc.o CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o CMakeFiles/ctests.dir/src/test_bgen.cc.o CMakeFiles/ctests.dir/src/test_query_variants.cc.o CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -o ctests -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [100%] Built target ctests [100%] Linking CXX executable vcf2genomicsdb_init cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb_init.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf2genomicsdb_init.dir/link.d CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o -o vcf2genomicsdb_init -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [100%] Built target vcf2genomicsdb_init make[3]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' debian/rules override_dh_auto_build-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Building the Java part with Maven. dh_auto_build --buildsystem=maven /usr/lib/jvm/default-java/bin/java -noverify -cp /usr/share/maven/boot/plexus-classworlds-2.x.jar -Dmaven.home=/usr/share/maven -Dmaven.multiModuleProjectDirectory=/build/reproducible-path/genomicsdb-1.5.5 -Dclassworlds.conf=/etc/maven/m2-debian.conf -Dproperties.file.manual=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.properties org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.5/debian -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo --batch-mode package -DskipTests -Dnotimestamp=true -Dlocale=en_US OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release. [INFO] Scanning for projects... [INFO] [INFO] ---------------------< org.genomicsdb:genomicsdb >---------------------- [INFO] Building org.genomicsdb:genomicsdb 1.5.5 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [WARNING] The artifact com.googlecode.json-simple:json-simple:jar:debian has been relocated to com.github.cliftonlabs:json-simple:jar:debian [INFO] [INFO] --- antrun:3.1.0:run (exec-protoc) @ genomicsdb --- [INFO] Executing tasks [INFO] [mkdir] Created dir: /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java [INFO] Executed tasks [INFO] [INFO] --- build-helper:3.3.0:add-source (add-source) @ genomicsdb --- [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/src/main/scala added. [INFO] [INFO] --- resources:3.3.1:resources (default-resources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.5/src/main/resources [INFO] [INFO] --- compiler:3.13.0:compile (default-compile) @ genomicsdb --- [INFO] Recompiling the module because of changed source code. [INFO] Compiling 30 source files with javac [debug target 17] to build/classes [WARNING] system modules path not set in conjunction with -source 17 [INFO] Annotation processing is enabled because one or more processors were found on the class path. A future release of javac may disable annotation processing unless at least one processor is specified by name (-processor), or a search path is specified (--processor-path, --processor-module-path), or annotation processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBVidMapProto.java:[93,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBTimer.java:[37,14] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/ImportConfig.java:[76,36] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[177,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2228,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2269,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[792,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3035,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3987,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBCallsetsMapProto.java:[139,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/exception/GenomicsDBException.java:[28,8] serializable class org.genomicsdb.exception.GenomicsDBException has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,50] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[160,28] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[333,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[333,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[334,9] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[334,30] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[336,9] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[336,41] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[338,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[338,36] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[342,17] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[342,40] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[462,17] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[462,45] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[483,9] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[483,41] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[690,94] found raw type: java.util.concurrent.CompletableFuture missing type arguments for generic class java.util.concurrent.CompletableFuture [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[224,46] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[99,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[109,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[50,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.Pair has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[70,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.VariantCall has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[76,25] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[110,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.Interval has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[112,23] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[483,84] PARSER in org.genomicsdb.model.Coordinates.GenomicsDBColumnOrInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[5485,72] PARSER in org.genomicsdb.model.Coordinates.ContigInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[4407,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[10171,72] PARSER in org.genomicsdb.model.Coordinates.ContigInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7553,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7594,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7635,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[54,27] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[139,58] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[79,39] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[206,31] previous possible 'this' escape happens here via invocation [INFO] [INFO] --- antrun:3.1.0:run (copy-native-libs) @ genomicsdb --- [INFO] Executing tasks [WARNING] [exec] The command attribute is deprecated. [exec] Please use the executable attribute and nested arg elements. [INFO] [exec] cp: cannot stat '/build/reproducible-path/genomicsdb-1.5.5/build/src/main/libtiledbgenomicsdb.dylib': No such file or directory [INFO] [exec] Result: 1 [WARNING] [exec] The command attribute is deprecated. [exec] Please use the executable attribute and nested arg elements. [INFO] [exec] cp: cannot stat '/build/reproducible-path/genomicsdb-1.5.5/build/src/main/libtiledbgenomicsdb.so': No such file or directory [INFO] [exec] Result: 1 [INFO] Executed tasks [INFO] [INFO] --- resources:3.3.1:testResources (default-testResources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.5/src/test/resources [INFO] [INFO] --- antrun:3.1.0:run (unzip-test-artifacts) @ genomicsdb --- [INFO] Executing tasks [INFO] [mkdir] Created dir: /build/reproducible-path/genomicsdb-1.5.5/build/test [INFO] [copy] Copying 1 file to /build/reproducible-path/genomicsdb-1.5.5/build/test [INFO] [gunzip] Expanding test.tar.gz to /build/reproducible-path/genomicsdb-1.5.5/build/test/test.tar [INFO] [untar] Expanding: /build/reproducible-path/genomicsdb-1.5.5/build/test/test.tar into /build/reproducible-path/genomicsdb-1.5.5/build/test [INFO] Executed tasks [INFO] [INFO] --- compiler:3.13.0:testCompile (default-testCompile) @ genomicsdb --- [INFO] Recompiling the module because of changed dependency. [INFO] Compiling 12 source files with javac [debug target 17] to build/test-classes [WARNING] system modules path not set in conjunction with -source 17 [INFO] Annotation processing is enabled because one or more processors were found on the class path. A future release of javac may disable annotation processing unless at least one processor is specified by name (-processor), or a search path is specified (--processor-path, --processor-module-path), or annotation processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] No processor claimed any of these annotations: /org.testng.annotations.BeforeClass,/org.testng.annotations.Test,/org.testng.annotations.DataProvider,/org.testng.annotations.BeforeMethod,/org.testng.annotations.AfterMethod [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,38] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[176,13] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[176,39] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[181,17] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[181,44] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[201,18] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[257,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[289,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[322,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[362,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[398,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[443,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[482,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[536,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [INFO] [INFO] --- surefire:2.22.3:test (default-test) @ genomicsdb --- [INFO] Tests are skipped. [INFO] [INFO] --- jar:3.3.0:jar (default-jar) @ genomicsdb --- [INFO] Building jar: /build/reproducible-path/genomicsdb-1.5.5/build/genomicsdb-1.5.5.jar [INFO] [INFO] --- jar:3.3.0:jar (main) @ genomicsdb --- [INFO] Building jar: /build/reproducible-path/genomicsdb-1.5.5/build/genomicsdb-1.5.5-main.jar [INFO] [INFO] --- jar:3.3.0:jar (spark) @ genomicsdb --- [INFO] Building jar: /build/reproducible-path/genomicsdb-1.5.5/build/genomicsdb-1.5.5-spark.jar [INFO] [INFO] --- antrun:3.1.0:run (replace-core-jar) @ genomicsdb --- [INFO] Executing tasks [INFO] [move] Moving 1 file to /build/reproducible-path/genomicsdb-1.5.5/build [INFO] [move] Moving 1 file to /build/reproducible-path/genomicsdb-1.5.5/build [INFO] Executed tasks [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 14.293 s [INFO] Finished at: 2026-12-04T07:29:14+14:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_build -O--buildsystem=cmake debian/rules override_dh_auto_test-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_test -a || true cd obj-x86_64-linux-gnu && make -j42 test ARGS\+=--verbose ARGS\+=-j42 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j42 UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu Constructing a list of tests Done constructing a list of tests Updating test list for fixtures Added 0 tests to meet fixture requirements Checking test dependency graph... Checking test dependency graph end Connected to MAKE jobserver test 1 Start 1: test_array_schema 1: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_array_schema 1: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 1: Test timeout computed to be: 10000000 test 2 Start 2: test_print_array_schema 2: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_print_array_schema 2: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 2: Test timeout computed to be: 10000000 test 3 Start 3: test_print_book_keeping 3: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_print_book_keeping 3: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 3: Test timeout computed to be: 10000000 test 4 Start 4: test_sparse_array_benchmark 4: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_sparse_array_benchmark 4: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 4: Test timeout computed to be: 10000000 test 5 Start 5: test_array_iterator 5: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_array_iterator 5: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 5: Test timeout computed to be: 10000000 test 6 Start 6: test_array_schema_api 6: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_array_schema_api 6: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 6: Test timeout computed to be: 10000000 test 7 Start 7: test_dense_array_api 7: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_dense_array_api 7: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 7: Test timeout computed to be: 10000000 test 8 Start 8: test_sparse_array_api 8: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_sparse_array_api 8: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 8: Test timeout computed to be: 10000000 test 9 Start 9: test_tiledb_utils 9: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_tiledb_utils 9: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 9: Test timeout computed to be: 10000000 test 10 Start 10: test_codec 10: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_codec 10: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 10: Test timeout computed to be: 10000000 test 11 Start 11: test_codec_filter 11: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_codec_filter 11: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 11: Test timeout computed to be: 10000000 test 12 Start 12: test_expressions 12: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_expressions 12: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 12: Test timeout computed to be: 10000000 test 13 Start 13: test_filter_api 13: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_filter_api 13: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 13: Test timeout computed to be: 10000000 test 14 Start 14: test_mem_utils 14: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_mem_utils 14: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 14: Test timeout computed to be: 10000000 test 15 Start 15: test_uri 15: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_uri 15: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 15: Test timeout computed to be: 10000000 test 16 Start 16: test_utils 16: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_utils 16: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 16: Test timeout computed to be: 10000000 test 17 Start 17: test_posixfs 17: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_posixfs 17: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 17: Test timeout computed to be: 10000000 test 18 Start 18: test_storage_buffer 18: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/test_storage_buffer 18: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 18: Test timeout computed to be: 10000000 test 19 Start 19: ci_tests 19: Test command: /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/run_examples.sh "&&" "echo" "Running diff with expected_results" "&&" "diff" "log" "/build/reproducible-path/genomicsdb-1.5.5/examples/expected_results" "&&" "/build/reproducible-path/genomicsdb-1.5.5/examples/run_examples_parallel.sh" 19: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples 19: Test timeout computed to be: 10000000 test 20 Start 20: ctests 20: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests "-d" "yes" 20: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp 20: Test timeout computed to be: 10000000 test 21 Start 21: api_tests 21: Test command: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/api_tests "-d" "yes" 21: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp 21: Test timeout computed to be: 10000000 test 22 Start 22: tools_tests 22: Test command: /build/reproducible-path/genomicsdb-1.5.5/tests/test_tools.sh "/build/reproducible-path/genomicsdb-1.5.5/tests/inputs/vcfs" "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools" "1" 22: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools 22: Test timeout computed to be: 10000000 1: Randomness seeded to: 577409892 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. 1: [TileDB::ArraySchema] Error: Cannot set cell order; Invalid cell order. 1: [TileDB::ArraySchema] Error: Unsupported. For a given VAR attribute, both compression and offsets_compression have to either have compression or not 1: . 1: [TileDB::ArraySchema] Error: Cannot set dimensions; No dimensions given. 1: [TileDB::ArraySchema] Error: Cannot set dimensions; The number of dimensions must be positive. 1: [TileDB::ArraySchema] Error: Cannot set dimensions; Duplicate dimension names. 1: [TileDB::ArraySchema] Error: Cannot set dimensions; Attribute name same as dimension name. 1: [TileDB::ArraySchema] Error: Cannot set types; Types not provided. 1: [TileDB::ArraySchema] Error: Cannot set types; Invalid type. 1: [TileDB::ArraySchema] Error: Cannot set domain; Domain not provided. 1: [TileDB::ArraySchema] Error: Cannot set tile order; Invalid tile order. 1: Array Schema Version: 1: 2 1: Array workspace: 1: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test 1: Array name: 1: 1: Dimension names: 1: dim1 1: dim2 1: Attribute names: 1: test_attr 1: test_attr1 1: Domain: 1: dim1: [0,99] 1: dim2: [0,99] 1: Types: 1: test_attr: int32[1] 1: test_attr1: int32[var] 1: Coordinates: int32 1: Cell sizes (in bytes): 1: test_attr: 4 1: test_attr1: var 1: Coordinates: 8 1: Dense: 1: false 1: Tile types: 1: irregular 1: Tile order: 1: - 1: Cell order: 1: column-major 1: Capacity: 1: 10000 1: Tile extents: 1: - 1: Compression for test_attr 1: Type = GZIP 1: Level= -1 1: Compression for test_attr1 1: Type = GZIP 1: Level= -1 1: Compression for offsets of test_attr1 1: Type = GZIP + DELTA_ENCODE 1: Level= -1 1: Compression for Coordinates: 1: Type = GZIP 1: Array Schema Version: 1: 2 1: Array name: 1: this_array 1: Dimension names: 1: one_dim 1: Attribute names: 1: this_attribute 1: Domain: 1: one_dim: [1,100] 1: Types: 1: this_attribute: int32[1] 1: Coordinates: int32 1: Cell sizes (in bytes): 1: this_attribute: 4 1: Coordinates: 4 1: Dense: 1: false 1: Tile types: 1: regular 1: Tile order: 1: row-major 1: Cell order: 1: row-major 1: Capacity: 1: - 1: Tile extents: 1: one_dim: 25 1: Compression for this_attribute 1: Type = NONE 1: Level= -1 1: Compression for Coordinates: 1: Type = NONE 1: Array Schema Version: 1: 2 1: Array name: 1: this_array 1: Dimension names: 1: one_dim 1: Attribute names: 1: this_attribute 1: Domain: 1: one_dim: [1,100] 1: Types: 1: this_attribute: int32[1] 1: Coordinates: int32 1: Cell sizes (in bytes): 1: this_attribute: 4 1: Coordinates: 4 1: Dense: 1: false 1: Tile types: 1: regular 1: Tile order: 1: row-major 1: Cell order: 1: row-major 1: Capacity: 1: - 1: Tile extents: 1: one_dim: 25 1: Compression for this_attribute 1: Type = NONE 1: Level= -1 1: Compression for Coordinates: 1: Type = NONE 1: Array Schema Version: 1: 2 1: Array name: 1: this_array_64 1: Dimension names: 1: one_dim_64 1: Attribute names: 1: this_attribute 1: Domain: 1: one_dim_64: [1,1] 1: Types: 1: this_attribute: int64[1] 1: Coordinates: int64 1: Cell sizes (in bytes): 1: this_attribute: 8 1: Coordinates: 8 1: Dense: 1: false 1: Tile types: 1: regular 1: Tile order: 1: row-major 1: Cell order: 1: row-major 1: Capacity: 1: - 1: Tile extents: 1: one_dim_64: 25 1: Compression for this_attribute 1: Type = NONE 1: Level= -1 1: Compression for Coordinates: 1: Type = NONE 1: =============================================================================== 1: All tests passed (43 assertions in 7 test cases) 1: 2: No arguments specified 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: 2194901903 4: =============================================================================== 4: test cases: 1 | 1 passed 4: assertions: - none - 4: 6: Randomness seeded to: 4204533609 6: =============================================================================== 6: All tests passed (335 assertions in 13 test cases) 6: 9: Randomness seeded to: 3040064286 9: [TileDB::utils] Error: (set_working_dir) Failed to set_working_dir as /tmp/TileDBTestTx8i7e/WORKSPACE.nonexistent does not exist 9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTest3bNer2/WORKSPACE errno=2(No such file or directory) 9: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=/tmp/TileDBTest3bNer2/WORKSPACE errno=2(No such file or directory) 9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTesthh0QQm/WORKSPACE errno=2(No such file or directory) 10: Randomness seeded to: 2475047018 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 10: [TileDB::Codec] Error: Could not decompress with GZIP. 10: [TileDB::utils] Error: (gzip_handle_error) Cannot decompress with GZIP: inflate error: Z_DATA_ERROR 10: [TileDB::Codec] Error: Could not decompress with GZIP. 10: [TileDB::Codec] Error: Codec for compression type=15 has already been registered. 10: =============================================================================== 10: All tests passed (31 assertions in 5 test cases) 10: 11: Randomness seeded to: 2042493089 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. 11: [TileDB::CodecFilter] Error: virtual method should be overridden. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Delta Encoding should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: [TileDB::CodecFilter] Error: Tile size to pre-compression filter Bit Shuffle should be a multiple of sizeof type. 11: =============================================================================== 11: All tests passed (192 assertions in 2 test cases) 11: 12: Randomness seeded to: 10613773 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 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: 12: Index to variable "a1" is out of bounds. 12: [TileDB::Expression] Error: (init) Attribute a2 in expression filter not present in the array schema 12: [TileDB::Expression] Error: (init) Parser SetExpr error for expression 'a1 === 22': Unexpected operator "=" found at position 5. 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 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: 13: Randomness seeded to: 4028353670 13: =============================================================================== 13: All tests passed (317 assertions in 3 test cases) 13: 14: Randomness seeded to: 2493503892 14: Fri Dec 4 07:29:17 2026 Memory stats Tracking memory usage START size=6MB resident=4MB share=3MB text=496KB lib=0 data=536KB dt=0 15: Randomness seeded to: 169881438 15: =============================================================================== 15: All tests passed (131 assertions in 2 test cases) 15: 16: Randomness seeded to: 1447451594 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 16: [TileDB::utils] Error: (RLE_compress_coords_row) Filed compressing coordinates with RLE; output buffer overflow 16: [TileDB::utils] Error: (RLE_compress_coords_col) Failed compressing coordinates with RLE; invalid buffer format 16: [TileDB::utils] Error: (RLE_compress_coords_col) Failed compressing coordinates with RLE; output buffer overflow 16: [TileDB::FileSystem] Error: (create_dir) Cannot create directory path=/non-existent-dir/dir errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/non-existent-dir/file errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=/non-existent-dir/file errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=/non-existent-dir/file errno=2(No such file or directory) 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: 2930959323 17: [TileDB::FileSystem] Error: (create_dir) Cannot create directory; Directory already exists path=/tmp/TileDBTestyyJOvE/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/TileDBTestyyJOvE/test_posixfs_dirdir errno=21(Is a directory) 17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTestyyJOvE/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: 2572165586 18: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTestYq1CVe/test-file 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/tmp/TileDBTestYq1CVe/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/TileDBTestYq1CVe/test-file 18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestYq1CVe/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) 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: (gzip_write_buffer) Cannot write bytes path=/non-existent-file errno=13(Permission denied) 18: [TileDB::StorageBuffer] Error: (write_buffer) Cannot compress and/or 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) 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/non-existent-file errno=2(No such file or directory) 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/non-existent-file errno=2(No such file or directory) 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/non-existent-file errno=2(No such file or directory) 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/non-existent-file errno=2(No such file or directory) 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/TileDBTestWbcUOk/compressed_foo 19: Example 1: Running ./tiledb_workspace_group_create... 19: Example 1: Done running ./tiledb_workspace_group_create 1/22 Test #1: test_array_schema ................ Passed 0.35 sec 2/22 Test #2: test_print_array_schema .......... Passed 0.39 sec 3/22 Test #3: test_print_book_keeping .......... Passed 0.38 sec 4/22 Test #4: test_sparse_array_benchmark ...... Passed 0.38 sec 5/22 Test #6: test_array_schema_api ............ Passed 0.37 sec 6/22 Test #10: test_codec ....................... Passed 0.29 sec 7/22 Test #11: test_codec_filter ................ Passed 0.29 sec 8/22 Test #12: test_expressions ................. Passed 0.28 sec 9/22 Test #13: test_filter_api .................. Passed 0.24 sec 10/22 Test #15: test_uri ......................... Passed 0.23 sec 19: Example 2: Running ./tiledb_ls_workspaces... 19: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=&& errno=2(No such file or directory) 19: Example 2: Done running ./tiledb_ls_workspaces 19: Example 3: Running ./tiledb_array_create_dense... 21: Randomness seeded to: 2662193243 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 07:29:17.631 ERROR NativeGenomicsDB - pid=533318 tid=533318 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 07:29:17.631 ERROR NativeGenomicsDB - pid=533318 tid=533318 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 07:29:17.631 ERROR NativeGenomicsDB - pid=533318 tid=533318 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 07:29:17.631 ERROR NativeGenomicsDB - pid=533318 tid=533318 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 07:29:17.631 ERROR NativeGenomicsDB - pid=533318 tid=533318 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-ws 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-ws errno=2(No such file or directory) 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 07:29:17.631 ERROR NativeGenomicsDB - pid=533318 tid=533318 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws[TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-ws errno=2(No such file or directory) 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 19: Example 3: Done running ./tiledb_array_create_dense 19: Example 4: Running ./tiledb_array_create_sparse... 17: [TileDB::FileSystem] Error: (delete_dir) Could not recursively delete directory path=non-existent-dir errno=2(No such file or directory) 20: 07:29:17.759 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 07:29:17.759 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 07:29:17.858 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 17: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=non-existent-dir errno=2(No such file or directory) 16: =============================================================================== 16: All tests passed (86 assertions in 6 test cases) 16: 20: Randomness seeded to: 2612958000 20: 0.184 s: Check loader configuration with json file 20: 07:29:17.859 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 07:29:17.859 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 07:29:17.859 DEBUG NativeGenomicsDB - pid=533300 tid=533300 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 11/22 Test #16: test_utils ....................... Passed 0.53 sec 20: 07:29:17.860 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 07:29:17.860 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 07:29:17.861 DEBUG NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:17.861 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 07:29:17.861 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 07:29:17.862 DEBUG NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:17.865 INFO NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:17.865 INFO NativeGenomicsDB - pid=533300 tid=533300 This is a test 20: 07:29:17.865 WARN NativeGenomicsDB - pid=533300 tid=533300 This is a test 20: 07:29:17.865 ERROR NativeGenomicsDB - pid=533300 tid=533300 This is a test 20: 07:29:17.865 DEBUG NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:17.866 INFO NativeGenomicsDB - pid=533300 tid=533300 i=1 str=This is a test 20: 07:29:17.866 WARN NativeGenomicsDB - pid=533300 tid=533300 i=2 str=This is a test 20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 i=3 str=This is a test 20: 07:29:17.866 DEBUG NativeGenomicsDB - pid=533300 tid=533300 i=4 str=This is a test 20: 07:29:17.866 INFO NativeGenomicsDB - pid=533300 tid=533300 i=6 str=This is a once_only test 20: 07:29:17.866 WARN NativeGenomicsDB - pid=533300 tid=533300 i=7 str=This is a once_only test 20: 0.000 s: test logger format 20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 i=1 str=This is a test 20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 Test Exception 20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 Test Exception 20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 Test Exception 20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 Native Stack Trace: 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x55a81d0a5fb2] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa4be6) [0x55a81d096be6] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x55a81d24a51c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x55a81d24b018] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x55a81d24b47a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x55a81d21e653] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x55a81d21e93c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x55a81d06c59e] 20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f8f03033ca8] 20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 Test Exception 20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 Native Stack Trace: 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x55a81d0a5fb2] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa4c09) [0x55a81d096c09] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x55a81d24a51c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x55a81d24b018] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x55a81d24b47a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x55a81d21e653] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x55a81d21e93c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x55a81d06c59e] 20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f8f03033ca8] 20: 0.001 s: test logger exceptions 19: Example 4: Done running ./tiledb_array_create_sparse 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x55a81d0a5fb2] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa7d3a) [0x55a81d099d3a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x55a81d24a51c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x55a81d24b018] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x55a81d24b47a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x55a81d21e653] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x55a81d21e93c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x55a81d06c59e] 20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f8f03033ca8] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x55a81d0a5fb2] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa7d60) [0x55a81d099d60] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x55a81d24a51c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x55a81d24b018] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x55a81d24b47a] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x55a81d21e653] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x55a81d21e93c] 20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x55a81d06c59e] 20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f8f03033ca8] 20: This is a test 20: 0.001 s: test explicit logger 20: 07:29:17.868 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 07:29:17.868 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 07:29:17.868 DEBUG NativeGenomicsDB - pid=533300 tid=533300 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... 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. 21: 0.381 s: utils 21: 0.000 s: api empty_args 20: 0.034 s: gvcf iterator 20: 07:29:17.902 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 07:29:17.902 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 07:29:17.903 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 9: 7e820c3ee657b1a27a56a7be9d202a7a7e820c3ee657b1a27a56a7be9d202a7a[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestmjMJqm/test_file 9: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestmjMJqm/test_file 19: Array name: my_workspace/dense_arrays/my_array_A 19: Attributes: a1 a2 a3 19: The array is dense 19: Array name: my_workspace/sparse_arrays/my_array_B 19: Attributes: a1 a2 a3 19: The array is sparse 19: Example 5: Done running ./tiledb_array_primitive 19: Example 6: Running ./tiledb_array_write_dense_1... 21: 0.039 s: api query_variants direct DP 21: 0.024 s: api query_variants direct DP with huge row range 20: 0.081 s: columnar_gvcf_iterator_test 20: 07:29:17.983 ERROR NativeGenomicsDB - pid=533300 tid=533300 hts_plugin could not find /tmp/GenomicsDBKfrxYt 20: [TileDB] Error: No TileDB support for URL=dfdfd://ddd. 20: 07:29:17.983 ERROR NativeGenomicsDB - pid=533300 tid=533300 htslib_plugin could not open dfdfd://ddd 20: No TileDB support for URL=dfdfd://ddd 20: 07:29:17.983 ERROR NativeGenomicsDB - pid=533300 tid=533300 hts_plugin could not find /tmp/GenomicsDBKfrxYt/foo 20: 07:29:17.983 ERROR NativeGenomicsDB - pid=533300 tid=533300 hts_plugin could not find /tmp/GenomicsDBKfrxYt/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: 07:29:17.983 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:17.983 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 0.029 s: api query_variants direct DP with huge disjoint row ranges 21: 0.023 s: api query_variants direct DP with range composed of multiple points 21: 0.026 s: api query_variants direct DP with range composed of overlapping ranges 21: 07:29:18.054 ERROR NativeGenomicsDB - pid=533318 tid=533318 Query interval 0:-100-1 is out of bounds 21: 0.016 s: api query_variants direct DP with invalid row range 17: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/tmp/TileDBTestCNRaaV/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/TileDBTestSTYcTM/test_posixfs_dirread_write/foo 17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestSTYcTM/test_posixfs_dirread_write/foo 17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestSTYcTM/test_posixfs_dirread_write/foo 21: 0.033 s: api query_variants direct DP and GT 21: 0.035 s: api query_variants direct DP and GT with PP 21: 07:29:18.125 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.125 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.126 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.143 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.143 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.143 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.162 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.162 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.163 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.040 s: api query_variants with json 21: 07:29:18.163 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.163 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.164 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/ws/t0_1_2/.__consolidation_lock 21: 07:29:18.182 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.182 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.183 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.200 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.200 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.201 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.038 s: api query variants with json string 21: 07:29:18.201 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.201 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.202 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.017 s: api query variants with enabled shared posixfs optimizations 21: ---------------- 21: Interval:[0,9223372036854775806] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 21: 0.049 s: api query_variant_calls direct 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 0.034 s: api query_variant_calls direct DP and GT 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0|0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 14: Fri Dec 4 07:29:18 2026 Memory stats Tracking memory usage END size=6MB resident=4MB share=4MB text=496KB lib=0 data=536KB dt=0 14: Test rusage 14: user cpu time=0seconds 3730microseconds 14: sys cpu time=0seconds 0microseconds 14: maximum resident set size: 4000KB 14: =============================================================================== 14: test cases: 1 | 1 passed 14: assertions: - none - 14: 12/22 Test #14: test_mem_utils ................... Passed 1.01 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) 21: 0.044 s: api query_variant_calls direct DP and GT with PP 21: 07:29:18.345 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.346 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.346 DEBUG NativeGenomicsDB - pid=533318 tid=533318 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: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 21: 07:29:18.359 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.359 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.360 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.376 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.376 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.377 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.032 s: api query_variant_calls with json 21: 07:29:18.378 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.378 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.378 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.379 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.379 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.379 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.379 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 19: Example 6: Done running ./tiledb_array_write_dense_1 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 19: Example 7: Running ./tiledb_array_write_sparse_1... 21: 07:29:18.400 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.400 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.401 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.401 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.401 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.402 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.402 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 17: [TileDB::FileSystem] Error: (read_from_file) Cannot open simultaneously for reads/writes path=test_posixfs_dir_locking/foo 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.424 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.424 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.425 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 17: [TileDB::FileSystem] Error: (~PosixFS) File does not seem to be closed path=test_dir_locking1/foo_sync 21: 07:29:18.425 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.425 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.426 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.426 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 17: [TileDB::FileSystem] Error: (~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: 21: 0.018 s: Try query with contig intervals instead of tiledb column intervals 21: 0.065 s: api query_variant_calls with protobuf 13/22 Test #17: test_posixfs ..................... Passed 1.11 sec 21: 07:29:18.442 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.442 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.443 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.444 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.444 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.444 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.444 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.466 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.466 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.467 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.468 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.468 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.468 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.468 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 19: Example 7: Done running ./tiledb_array_write_sparse_1 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.488 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.488 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.488 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.489 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.489 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.490 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.490 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 5: Randomness seeded to: 2972532588 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: 14/22 Test #5: test_array_iterator .............. Passed 1.32 sec 21: 0.017 s: Try query with a filter 21: 0.062 s: api query_variant_calls with protobuf 21: 07:29:18.505 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.505 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.505 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.506 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.506 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.506 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.506 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.528 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.528 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.528 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.529 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.529 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.529 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.529 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.550 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.550 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.551 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.551 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.551 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.552 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.552 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.024 s: Try query with a filter and workspace with GT ploidy 21: 0.069 s: api query_variant_calls with protobuf 21: 07:29:18.574 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.574 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.574 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.575 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.575 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.576 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.576 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.599 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.599 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.599 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.600 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.600 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.600 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.600 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.622 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.622 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.622 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.623 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.623 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.624 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.624 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.018 s: Try query with a filter and a small segment size to force TileDB buffers overflow 21: 0.066 s: api query_variant_calls with protobuf 21: 07:29:18.640 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.640 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.641 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.642 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.642 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.642 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.642 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.666 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.666 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.666 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.667 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.667 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.668 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.668 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.687 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.687 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.687 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.688 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.688 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.689 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.689 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.019 s: Try query with POS and ROW with no match 21: 0.066 s: api query_variant_calls with protobuf 21: 07:29:18.706 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.706 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.707 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.707 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.707 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.708 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.708 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 9: =============================================================================== 9: All tests passed (10488239 assertions in 9 test cases) 9: 21: 07:29:18.728 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.728 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.729 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 15/22 Test #9: test_tiledb_utils ................ Passed 1.51 sec 21: 07:29:18.729 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.729 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.730 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.730 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.750 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.750 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.751 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.752 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.752 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.752 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.752 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.019 s: Try query with POS and ROW 21: 0.064 s: api query_variant_calls with protobuf 21: 07:29:18.770 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.770 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.770 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.771 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.771 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.771 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.771 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.793 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.793 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.793 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.794 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.794 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.795 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.795 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.816 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.816 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.816 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.817 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.817 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.818 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.818 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.019 s: Try query with ISHOMREF 21: 0.065 s: api query_variant_calls with protobuf 21: 07:29:18.835 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.835 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.835 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.836 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.836 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.836 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.836 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.857 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.857 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.858 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.859 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.859 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.859 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.859 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.881 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.881 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.881 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.882 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.882 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.883 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.883 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.018 s: Try query with ISHOMREF 21: 0.065 s: api query_variant_calls with protobuf 21: 07:29:18.900 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.900 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.900 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.901 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.901 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.902 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.902 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.921 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.921 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.922 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.922 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.922 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.923 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.923 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.943 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.943 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.943 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.944 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.944 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.944 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.944 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.018 s: Try query with ISHOMREF 21: 0.061 s: api query_variant_calls with protobuf 21: 07:29:18.961 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.961 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.961 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.962 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.962 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.962 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.962 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:18.983 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:18.984 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.984 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.985 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:18.985 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:18.985 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:18.985 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: sample=HG00141 21: row=0 position=12140 21: genomic_interval=1:12141,12295 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG01958 21: row=1 position=12144 21: genomic_interval=1:12145,12277 21: genomic_fields 21: REF:C ALT:[] GT:0/0 21: sample=HG00141 21: row=0 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 21: sample=HG01958 21: row=1 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[T, ] GT:1/1 DP:120 21: sample=HG01530 21: row=2 position=17384 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 21: 07:29:19.002 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:19.002 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:19.003 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:19.003 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:19.003 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:19.003 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:19.003 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.016 s: Try query with ISHOMREF 21: 0.057 s: api query_variant_calls with protobuf 21: 0.012 s: Base configuration 21: 0.015 s: api query_variant_calls with protobuf and config 21: 07:29:19.034 ERROR NativeGenomicsDB - pid=533318 tid=533318 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: 0.002 s: api query_variant_calls with protobuf and config 21: 0.012 s: Subset Array using QueryConfiguration 21: 0.014 s: api query_variant_calls with protobuf and config 21: 0.012 s: Subset Array using ExportConfiguration 21: 0.016 s: api query_variant_calls with protobuf and config 21: 0.013 s: Subset Array using QueryConfiguration - two intervals 21: 0.016 s: api query_variant_calls with protobuf and config 21: 0.016 s: Subset Array using QueryConfiguration - multiple queries 21: 0.019 s: api query_variant_calls with protobuf and config 21: 0.014 s: Test filter test for 0 21: 0.014 s: api query_variant_calls with protobuf new 21: 0.016 s: Test filter test for 1 21: 0.016 s: api query_variant_calls with protobuf new 21: 0.015 s: Test filter test for 2 21: 0.015 s: api query_variant_calls with protobuf new 21: 0.015 s: Test filter test for 3 21: 0.016 s: api query_variant_calls with protobuf new 21: 273 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"REF":["C","G"],"GT":["C/C","G/A"],"DP":[null,null]},"HG01530":{"CHR":["1"],"POS":[17385],"REF":["G"],"GT":["G/A"],"DP":[76]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"REF":["C","G"],"GT":["C/C","T/T"],"DP":[null,120]}} 21: 21: 207 {"FIELD":["CHR","POS","REF","GT","DP"],"HG00141":[["1",12141,"C","C/C",null],["1",17385,"G","G/A",null]],"HG01530":[["1",17385,"G","G/A",76]],"HG01958":[["1",12145,"C","C/C",null],["1",17385,"G","T/T",120]]} 21: 21: 37 {"HG00141":2,"HG01530":1,"HG01958":2} 21: 21: 15 {"num_calls":5} 21: 21: 15 {"num_calls":5} 21: 21: 31 ["HG00141","HG01530","HG01958"] 21: 21: 1999 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"REF":["C","G"],"QUAL":[null,475.7699890136719],"FILTER":[null,"0"],"DP":[null,null],"BaseQRankSum":[null,-2.0959999561309816],"ClippingRankSum":[null,-1.8589999675750733],"DS":["1","1"],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MLEAC":[null,"1, 5"],"MLEAF":[null,"0.500000, 1.200000"],"MQ":[null,31.719999313354493],"RAW_MQ":[null,5.5],"MQ0":[null,8],"MQRankSum":[null,-0.32899999618530276],"ReadPosRankSum":[null,0.004999999888241291],"PGT":[null,"0|1"],"PID":[null,"17385_G_A"],"AD":[null,"58, 22, 17"],"DP_FORMAT":[2,80],"GQ":[0,99],"GT":["C/C","G/A"],"MIN_DP":[0,null],"PL":["0, 0, 0","504, 0, 9807, 678, 1870, 2548"],"SB":[null,"58, 0, 22, 0"]},"HG01530":{"CHR":["1"],"POS":[17385],"REF":["G"],"QUAL":[989.77001953125],"FILTER":[null],"DP":[76],"BaseQRankSum":[1.0460000038146973],"ClippingRankSum":[-2.242000102996826],"DS":[null],"HaplotypeScore":[null],"InbreedingCoeff":[null],"MLEAC":["1, 0"],"MLEAF":["0.500000, 0.000000"],"MQ":[59.369998931884769],"RAW_MQ":[null],"MQ0":[0],"MQRankSum":[-0.4320000112056732],"ReadPosRankSum":[2.055000066757202],"PGT":[null],"PID":[null],"AD":["40, 36, 0"],"DP_FORMAT":[76],"GQ":[99],"GT":["G/A"],"MIN_DP":[null],"PL":["1018, 0, 1116, 1137, 1224, 2361"],"SB":["9, 31, 13, 23"]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"REF":["C","G"],"QUAL":[null,3302.77001953125],"FILTER":[null,"0"],"DP":[null,120],"BaseQRankSum":[null,-2.0739998817443849],"ClippingRankSum":[null,0.5550000071525574],"DS":["1",null],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MLEAC":[null,"2, 7"],"MLEAF":[null,"1.000000, 0.700000"],"MQ":[null,29.81999969482422],"RAW_MQ":[null,2.5],"MQ0":[null,3],"MQRankSum":[null,-1.36899995803833],"ReadPosRankSum":[null,-0.10100000351667404],"PGT":[null,"0|1"],"PID":[null,"17385_G_T"],"AD":[null,"0, 120, 37"],"DP_FORMAT":[3,120],"GQ":[0,99],"GT":["C/C","T/T"],"MIN_DP":[0,null],"PL":["0, 0, 0","3336, 358, 0, 4536, 958, 7349"],"SB":[null,"0, 0, 0, 0"]}} 21: 21: 0.056 s: api query_variant_calls with JSONVariantCallProcessor 21: 0.000 s: Test genomicsdb demo test case 18: =============================================================================== 18: All tests passed (450703 assertions in 3 test cases) 18: 16/22 Test #18: test_storage_buffer .............. Passed 1.91 sec 21: 0.379 s: api generate_vcf direct 21: 07:29:19.596 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:19.596 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:19.597 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 20: 07:29:19.655 INFO NativeGenomicsDB - pid=533300 tid=533300 Plink progress 3452039 / 6904084 = 50.00% 20: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 PL field for sample: HG00141 row: 0 column: 12277 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 20: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 PL field for sample: HG00141 row: 0 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 20: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 PL field for sample: HG01958 row: 1 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 20: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 PL field for sample: HG00141 row: 0 column: 12399 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 20: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 PL field for sample: HG01958 row: 1 column: 12399 contains a negative value or otherwise did not parse, full string: 0, 1, -2147483648 20: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 WARN NativeGenomicsDB - pid=533300 tid=533300 GL probabilities at sample: HG01958 row: 1 column: 12499 sum to 0.8981071705534972, expected near 1. Generated BGEN may be invalid 21: 0.423 s: api generate_vcf with json 21: 07:29:20.020 DEBUG NativeGenomicsDB - pid=533318 tid=536309 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:20.020 WARN NativeGenomicsDB - pid=533318 tid=536309 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.020 DEBUG NativeGenomicsDB - pid=533318 tid=536311 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:20.020 WARN NativeGenomicsDB - pid=533318 tid=536311 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.020 DEBUG NativeGenomicsDB - pid=533318 tid=536310 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:20.020 WARN NativeGenomicsDB - pid=533318 tid=536310 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.020 DEBUG NativeGenomicsDB - pid=533318 tid=536314 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:20.020 WARN NativeGenomicsDB - pid=533318 tid=536314 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.020 DEBUG NativeGenomicsDB - pid=533318 tid=536315 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:20.020 WARN NativeGenomicsDB - pid=533318 tid=536315 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536316 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:20.021 WARN NativeGenomicsDB - pid=533318 tid=536316 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536311 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536317 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536309 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.021 WARN NativeGenomicsDB - pid=533318 tid=536317 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536314 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536310 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536315 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.021 WARN NativeGenomicsDB - pid=533318 tid=536318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536316 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536317 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 20: 2.059 s: test bgen 20: 07:29:20.043 ERROR NativeGenomicsDB - pid=533300 tid=533300 VariantStorageManagerException exception : Could not open workspace 20: 07:29:20.044 ERROR NativeGenomicsDB - pid=533300 tid=533300 Could not open array non_existent_array in workspace /tmp/GenomicsDBhtsCII/ws 20: 07:29:20.044 ERROR NativeGenomicsDB - pid=533300 tid=533300 VariantQueryProcessorException : Could not open array non_existent_array at workspace /tmp/GenomicsDBhtsCII/ws 20: 0.001 s: constructor 20: 07:29:20.044 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 07:29:20.045 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 07:29:20.045 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.027 s: api generate_vcf with json multiple threads 21: 07:29:20.047 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:20.047 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.048 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.049 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.049 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.049 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:20.049 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 20: 07:29:20.055 ERROR NativeGenomicsDB - pid=533300 tid=533300 Invalid query attribute : non_existent_attribute 20: 0.012 s: test basic queries 20: 07:29:20.056 INFO NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:20.056 DEBUG NativeGenomicsDB - pid=533300 tid=533300 Deleting htslib_fs_adapter tiledb_ctx_map 17/22 Test #20: ctests ........................... Passed 2.64 sec 21: 07:29:20.066 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:20.066 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.067 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.067 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.067 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.068 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:20.068 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.084 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 07:29:20.084 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.085 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.086 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 07:29:20.086 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 07:29:20.086 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 07:29:20.086 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: ---------------- 21: Interval:[0,1000000000] 21: 21: 0.040 s: api annotate query_variant_calls with test datasource 0 21: =============================================================================== 21: All tests passed (1548 assertions in 26 test cases) 21: 18/22 Test #21: api_tests ........................ Passed 2.89 sec 7: Randomness seeded to: 154489398 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... 19: Example 10: Done running ./tiledb_array_write_dense_2 19: Example 11: 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 11: Done running ./tiledb_array_read_dense_1 19: Example 12: Running ./tiledb_array_read_dense_2... 19: a1 19: ---- 19: Reading cells... 19: 9 19: 11 19: 12 19: Reading cells... 19: 13 19: 14 19: 15 19: Example 12: Done running ./tiledb_array_read_dense_2 19: Example 13: Running ./tiledb_array_write_dense_sorted... 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 (109832778 assertions in 4 test cases) 7: 19/22 Test #7: test_dense_array_api ............. Passed 17.19 sec 19: Example 13: Done running ./tiledb_array_write_dense_sorted 19: Example 14: 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 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 8: Randomness seeded to: 3532409959 8: 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] =============================================================================== 8: All tests passed (5872369 assertions in 15 test cases) 8: 20/22 Test #8: test_sparse_array_api ............ Passed 30.58 sec 19: Example 16: 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: 112 M (112.1, 112.2) 19: 113 NN (113.1, 113.2) 19: 114 OOO (114.1, 114.2) 19: 115 PPPP (115.1, 115.2) 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 19: Example 18: 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: 208 u (208.1, 208.2) 19: 9 jj ( 9.1, 9.2) 19: 10 kkk ( 10.1, 10.2) 19: 211 wwww (211.1, 211.2) 19: 212 x (212.1, 212.2) 19: 213 yy (213.1, 213.2) 19: 114 OOO (114.1, 114.2) 19: 115 PPPP (115.1, 115.2) 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 19: Example 20: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (1, 1) 0 a ( 0.1, 0.2) 19: (1, 2) 1 bb ( 1.1, 1.2) 19: (1, 4) 2 ccc ( 2.1, 2.2) 19: (2, 3) 3 dddd ( 3.1, 3.2) 19: (3, 1) 4 e ( 4.1, 4.2) 19: (4, 2) 5 ff ( 5.1, 5.2) 19: (3, 3) 6 ggg ( 6.1, 6.2) 19: (3, 4) 7 hhhh ( 7.1, 7.2) 19: Example 20: Done running ./tiledb_array_read_sparse_1 19: Example 21: Running ./tiledb_array_read_sparse_filter_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: Example 21: Done running ./tiledb_array_read_sparse_filter_1 19: Example 22: Running ./tiledb_array_iterator_sparse... 19: a1 19: ---- 19: 5 19: 6 19: 7 19: Example 22: Done running ./tiledb_array_iterator_sparse 19: Example 23: Running ./tiledb_array_iterator_sparse_filter... 19: a1 19: ---- 19: 6 19: 7 19: Example 23: Done running ./tiledb_array_iterator_sparse_filter 19: Example 24: Running ./tiledb_array_read_sparse_2... 19: a1 19: ---- 19: Reading cells... 19: 5 19: 6 19: Reading cells... 19: 7 19: Example 24: Done running ./tiledb_array_read_sparse_2 19: Example 25: Running ./tiledb_array_read_sparse_filter_2... 19: a1 19: ---- 19: Reading cells... 19: 6 19: Reading cells... 19: 7 19: Example 25: Done running ./tiledb_array_read_sparse_filter_2 19: Example 26: Running ./tiledb_array_write_sparse_2... 19: Example 26: Done running ./tiledb_array_write_sparse_2 19: Example 27: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (1, 1) 0 a ( 0.1, 0.2) 19: (1, 2) 1 bb ( 1.1, 1.2) 19: (1, 4) 2 ccc ( 2.1, 2.2) 19: (2, 3) 3 dddd ( 3.1, 3.2) 19: (3, 1) 4 e ( 4.1, 4.2) 19: (4, 2) 5 ff ( 5.1, 5.2) 19: (3, 3) 6 ggg ( 6.1, 6.2) 19: (3, 4) 7 hhhh ( 7.1, 7.2) 19: Example 27: Done running ./tiledb_array_read_sparse_1 19: Example 28: Running ./tiledb_array_read_sparse_2... 19: a1 19: ---- 19: Reading cells... 19: 5 19: 6 19: Reading cells... 19: 7 19: Example 28: Done running ./tiledb_array_read_sparse_2 19: Example 29: Running ./tiledb_array_read_sparse_filter_2... 19: a1 19: ---- 19: Reading cells... 19: 6 19: Reading cells... 19: 7 19: Example 29: Done running ./tiledb_array_read_sparse_filter_2 19: Example 30: Running ./tiledb_array_update_sparse_1... 19: Example 30: Done running ./tiledb_array_update_sparse_1 22: Build with DISABLE_MPI option set, not running gt_mpi_gather tests 21/22 Test #22: tools_tests ...................... Passed 49.48 sec 19: Example 31: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (1, 1) 0 a ( 0.1, 0.2) 19: (1, 2) 1 bb ( 1.1, 1.2) 19: (1, 4) 2 ccc ( 2.1, 2.2) 19: (2, 3) 3 dddd ( 3.1, 3.2) 19: (3, 1) 4 e ( 4.1, 4.2) 19: (3, 2) 104 u (104.1, 104.2) 19: (4, 1) 105 vvvv (105.1, 105.2) 19: (4, 2) 5 ff ( 5.1, 5.2) 19: (3, 3) 106 w (106.1, 106.2) 19: (3, 4) 107 yyy (107.1, 107.2) 19: Example 31: Done running ./tiledb_array_read_sparse_1 19: Example 32: Running ./tiledb_array_read_sparse_filter_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (4, 1) 105 vvvv (105.1, 105.2) 19: Example 32: Done running ./tiledb_array_read_sparse_filter_1 19: Example 33: Running ./tiledb_array_read_sparse_filter_2... 19: a1 19: ---- 19: Reading cells... 19: Reading cells... 19: 106 19: 107 19: Example 33: Done running ./tiledb_array_read_sparse_filter_2 19: Example 34: Running ./tiledb_array_iterator_sparse... 19: a1 19: ---- 19: 104 19: 5 19: 106 19: 107 19: Example 34: Done running ./tiledb_array_iterator_sparse 19: Example 35: Running ./tiledb_array_iterator_sparse_filter... 19: a1 19: ---- 19: 104 19: 106 19: 107 19: Example 35: Done running ./tiledb_array_iterator_sparse_filter 19: Example 36: Running ./tiledb_array_read_sparse_2... 19: a1 19: ---- 19: Reading cells... 19: 104 19: 5 19: Reading cells... 19: 106 19: 107 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 19: Example 38: 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: 208 u (208.1, 208.2) 19: 9 jj ( 9.1, 9.2) 19: 10 kkk ( 10.1, 10.2) 19: 211 wwww (211.1, 211.2) 19: 212 x (212.1, 212.2) 19: 213 yy (213.1, 213.2) 19: 114 OOO (114.1, 114.2) 19: 115 PPPP (115.1, 115.2) 19: Example 38: Done running ./tiledb_array_read_dense_1 19: Example 39: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- 19: (1, 1) 0 a ( 0.1, 0.2) 19: (1, 2) 1 bb ( 1.1, 1.2) 19: (1, 4) 2 ccc ( 2.1, 2.2) 19: (2, 3) 3 dddd ( 3.1, 3.2) 19: (3, 1) 4 e ( 4.1, 4.2) 19: (3, 2) 104 u (104.1, 104.2) 19: (4, 1) 105 vvvv (105.1, 105.2) 19: (4, 2) 5 ff ( 5.1, 5.2) 19: (3, 3) 106 w (106.1, 106.2) 19: (3, 4) 107 yyy (107.1, 107.2) 19: Example 39: Done running ./tiledb_array_read_sparse_1 19: Example 40: Running ./tiledb_array_read_dense_2... 19: a1 19: ---- 19: Reading cells... 19: 9 19: 211 19: 212 19: Reading cells... 19: 213 19: 114 19: 115 19: Example 40: Done running ./tiledb_array_read_dense_2 19: Example 41: Running ./tiledb_array_read_sparse_2... 19: a1 19: ---- 19: Reading cells... 19: 104 19: 5 19: Reading cells... 19: 106 19: 107 19: Example 41: Done running ./tiledb_array_read_sparse_2 19: Example 42: Running ./tiledb_array_3d... 19: 4 results 19: coords a1 a2 19: ----------------------- 19: 0, 0, 0 0 first 19: 0, 0, 1 1 second 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 66.19 sec 100% tests passed, 0 tests failed out of 22 Total Test time (real) = 66.46 sec make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' debian/rules override_dh_auto_test-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_build cd obj-x86_64-linux-gnu && make -j42 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/depend make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/depend make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". 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Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". [ 13%] Built target genomicsdb-hts Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". [ 25%] Built target TILEDB_CORE_OBJECTS make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/depend make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/compiler_depend.internal". [ 25%] Built target tiledb_static make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/depend Consolidate compiler generated dependencies of target tiledb_shared make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target GenomicsDB_library_object_files make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build 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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_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 make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" 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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.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 Consolidate compiler generated dependencies of target test_print_array_schema make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/depend make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" [ 26%] Built target tiledb_shared make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target test_array_schema make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.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 Consolidate compiler generated dependencies of target test_print_book_keeping make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples 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Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". 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/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". 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 Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". 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 Consolidate compiler generated dependencies of target test_sparse_array_benchmark Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_array_schema_api Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build Consolidate compiler generated dependencies of target test_sparse_array_api make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". 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Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_filter_api cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_posixfs Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' 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-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_storage_buffer Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_mem_utils make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_dense_array_api make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_create_dense Consolidate compiler generated dependencies of target test_codec_filter 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 Consolidate compiler generated dependencies of target test_expressions Consolidate compiler generated dependencies of target tiledb_array_consolidate Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". 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Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/compiler_depend.internal". make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_aio_write_dense Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_aio_read_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_iterator_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build Consolidate compiler generated dependencies of target tiledb_array_3d make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_create_sparse make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build'. make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_uri make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build'. [ 26%] Built target test_print_book_keeping make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build [ 27%] Built target test_print_array_schema Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 28%] Built target test_sparse_array_benchmark make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse_filter make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 28%] Built target test_array_schema make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 43%] Built target GenomicsDB_library_object_files make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_sparse [ 44%] Built target test_sparse_array_api make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build [ 45%] Built target test_array_schema_api make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 46%] Built target test_tiledb_utils make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 47%] Built target test_codec [ 48%] Built target test_filter_api [ 49%] Built target test_array_iterator [ 49%] Built target test_expressions [ 49%] Built target test_mem_utils [ 49%] Built target test_codec_filter [ 50%] Built target test_utils [ 52%] Built target test_posixfs [ 52%] Built target test_storage_buffer [ 52%] Built target tiledb_array_3d 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 [ 50%] Built target tiledb_array_aio_read_dense [ 53%] Built target tiledb_array_aio_write_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/DependInfo.cmake "--color=" make -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 [ 54%] Built target test_dense_array_api 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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.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 [ 55%] Built target tiledb_array_create_dense [ 55%] Built target tiledb_array_create_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/depend 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" [ 56%] Built target tiledb_array_consolidate make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" [ 56%] Built target tiledb_array_iterator_dense [ 56%] Built target test_uri make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" [ 57%] Built target tiledb_array_iterator_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.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/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" [ 58%] Built target tiledb_array_parallel_consolidate_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" [ 58%] Built target tiledb_array_parallel_consolidate_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/depend [ 59%] Built target tiledb_array_iterator_sparse_filter make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/depend 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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_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 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". 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 Consolidate compiler generated dependencies of target tiledb_array_parallel_read_mpi_io_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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/src/tiledb_array_parallel_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_read_sparse_2 Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_dense_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' 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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_dense_3 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_primitive make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". 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 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_update_dense_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_sparse_1 Consolidate compiler generated dependencies of target tiledb_array_read_dense_2 Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". make -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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build 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 Consolidate compiler generated dependencies of target tiledb_array_read_dense_sorted Consolidate compiler generated dependencies of target tiledb_array_read_sparse_sorted 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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_update_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build 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-1.5.5/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_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_write_dense_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". 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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build Consolidate compiler generated dependencies of target tiledb_array_write_dense_1 Consolidate compiler generated dependencies of target tiledb_array_write_dense_sorted Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build Consolidate compiler generated dependencies of target tiledb_array_write_sparse_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/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_update_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build Consolidate compiler generated dependencies of target tiledb_array_update_dense_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 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' 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-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 60%] Built target tiledb_array_parallel_read_mpi_io_dense [ 60%] Built target tiledb_array_parallel_read_dense_1 [ 60%] Built target tiledb_array_parallel_read_sparse_1 [ 60%] Built target tiledb_array_parallel_write_dense_2 [ 61%] Built target tiledb_array_parallel_read_sparse_2 [ 62%] Built target tiledb_array_parallel_write_sparse_1 [ 63%] Built target tiledb_array_parallel_read_dense_2 [ 64%] Built target tiledb_array_parallel_write_dense_1 [ 65%] Built target tiledb_array_read_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/depend make -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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/depend [ 65%] Built target tiledb_array_parallel_write_sparse_2 [ 65%] Built target tiledb_array_read_sparse_1 [ 66%] Built target tiledb_array_primitive make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend [ 67%] Built target tiledb_array_read_dense_3 [ 67%] Built target tiledb_array_read_dense_2 [ 68%] Built target tiledb_array_read_sparse_2 [ 69%] Built target tiledb_array_write_dense_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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 70%] Built target tiledb_array_read_sparse_filter_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" [ 71%] Built 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 [ 71%] Built target tiledb_array_read_sparse_filter_2 [ 72%] Built target tiledb_array_read_sparse_sorted make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" [ 72%] Built target tiledb_array_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend [ 73%] Built target tiledb_array_write_dense_sorted [ 73%] Built target tiledb_array_update_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" [ 74%] 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 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend [ 75%] Built target tiledb_array_write_sparse_1 [ 75%] Built target tiledb_array_update_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.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 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/depend make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target tiledb_delete [ 76%] Built target tiledb_array_update_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_write_sparse_2 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_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_write_sparse_4 Consolidate compiler generated dependencies of target tiledb_array_write_sparse_3 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_clear_delete_move Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_config make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_ls Consolidate compiler generated dependencies of target tiledb_catching_errors make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build Consolidate compiler generated dependencies of target tiledb_ls_workspaces make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_metadata_consolidate make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build'. make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_metadata_iterator make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_metadata_update Dependencies file "src/main/CMakeFiles/tiledbgenomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_metadata_read Consolidate compiler generated dependencies of target tiledb_metadata_create make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_metadata_primitive make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build Consolidate compiler generated dependencies of target tiledbgenomicsdb make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build [ 77%] Built target tiledb_delete make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". [ 77%] Built target tiledb_array_write_sparse_4 Consolidate compiler generated dependencies of target tiledb_metadata_write make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 77%] Built target tiledb_config make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 78%] Built target tiledb_array_write_sparse_3 make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/tiledbgenomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_workspace_group_create make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build [ 78%] Built target tiledb_array_write_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 79%] Built target tiledb_catching_errors [ 80%] Built target tiledb_clear_delete_move [ 81%] Built target tiledb_ls [ 82%] Built target tiledb_metadata_consolidate [ 82%] Built target tiledb_metadata_create [ 83%] Built target tiledb_metadata_iterator [ 83%] Built target tiledb_metadata_read [ 82%] Built target tiledb_ls_workspaces [ 83%] Built target tiledb_metadata_write [ 84%] Built target tiledb_workspace_group_create [ 86%] Built target tiledb_metadata_update [ 86%] Built target tiledbgenomicsdb [ 85%] Built target tiledb_metadata_primitive make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend [ 86%] Built target genomicsdb 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" make -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 -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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target consolidate_genomicsdb_array Dependencies file "tools/CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/build Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb_init.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target vcf2genomicsdb_init Dependencies file "src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/build Dependencies file "src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/consolidate_genomicsdb_array.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target create_genomicsdb_workspace Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/build Dependencies file "tools/CMakeFiles/gt_mpi_gather.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf_histogram.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target api_tests Consolidate compiler generated dependencies of target test_genomicsdb_demo Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "tools/CMakeFiles/vcf2genomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/compiler_depend.internal". make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/create_genomicsdb_workspace.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target genomicsdbjni Dependencies file "example/CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target gt_mpi_gather Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target vcf_histogram make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb_init.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "example/CMakeFiles/test_genomicsdb_importer.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target vcf2genomicsdb make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/build make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/build make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/build Consolidate compiler generated dependencies of target test_genomicsdb_bcf_generator make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/build Consolidate compiler generated dependencies of target test_genomicsdb_importer make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "tools/CMakeFiles/vcfdiff.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/gt_mpi_gather.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf_histogram.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/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-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdbjni.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/build [ 87%] Built target consolidate_genomicsdb_array Consolidate compiler generated dependencies of target vcfdiff make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/build [ 87%] Built target create_genomicsdb_workspace make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_importer.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcfdiff.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 88%] Built target api_tests [ 89%] Built target genomicsdbjni [ 87%] Built target test_genomicsdb_demo Consolidate compiler generated dependencies of target ctests [ 90%] Built target vcf2genomicsdb_init [ 90%] Built target gt_mpi_gather make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build [ 91%] Built target vcfdiff [ 92%] Built target vcf_histogram [ 93%] Built target vcf2genomicsdb [ 94%] Built target test_genomicsdb_bcf_generator [ 95%] Built target test_genomicsdb_importer make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/ctests.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [100%] Built target ctests make[3]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' # Testing the Java part. We extend LD_LIBRARY_PATH because some test code is # run without surefire. LD_LIBRARY_PATH=":obj-x86_64-linux-gnu/src/main" dh_auto_test --buildsystem=maven /usr/lib/jvm/default-java/bin/java -noverify -cp /usr/share/maven/boot/plexus-classworlds-2.x.jar -Dmaven.home=/usr/share/maven -Dmaven.multiModuleProjectDirectory=/build/reproducible-path/genomicsdb-1.5.5 -Dclassworlds.conf=/etc/maven/m2-debian.conf -Dproperties.file.manual=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.properties org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.5/debian -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo --batch-mode test OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release. [INFO] Scanning for projects... [INFO] [INFO] ---------------------< org.genomicsdb:genomicsdb >---------------------- [INFO] Building org.genomicsdb:genomicsdb 1.5.5 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [WARNING] The artifact com.googlecode.json-simple:json-simple:jar:debian has been relocated to com.github.cliftonlabs:json-simple:jar:debian [INFO] [INFO] --- antrun:3.1.0:run (exec-protoc) @ genomicsdb --- [INFO] Executing tasks [INFO] Executed tasks [INFO] [INFO] --- build-helper:3.3.0:add-source (add-source) @ genomicsdb --- [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.5/src/main/scala added. [INFO] [INFO] --- resources:3.3.1:resources (default-resources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.5/src/main/resources [INFO] [INFO] --- compiler:3.13.0:compile (default-compile) @ genomicsdb --- [INFO] Recompiling the module because of changed source code. [INFO] Compiling 30 source files with javac [debug target 17] to build/classes [WARNING] system modules path not set in conjunction with -source 17 [INFO] Annotation processing is enabled because one or more processors were found on the class path. A future release of javac may disable annotation processing unless at least one processor is specified by name (-processor), or a search path is specified (--processor-path, --processor-module-path), or annotation processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBVidMapProto.java:[93,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBTimer.java:[37,14] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/ImportConfig.java:[76,36] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[177,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2228,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBImportConfiguration.java:[2269,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[792,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3035,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/Coordinates.java:[3987,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBCallsetsMapProto.java:[139,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/exception/GenomicsDBException.java:[28,8] serializable class org.genomicsdb.exception.GenomicsDBException has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[91,50] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[160,28] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[322,73] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[333,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[333,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[334,9] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[334,30] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[336,9] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[336,41] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[338,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[338,36] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[342,17] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[342,40] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[367,44] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[462,17] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[462,45] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[483,9] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[483,41] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[690,94] found raw type: java.util.concurrent.CompletableFuture missing type arguments for generic class java.util.concurrent.CompletableFuture [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[799,58] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[224,46] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[99,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[109,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[50,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.Pair has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[70,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.VariantCall has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[76,25] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[110,17] serializable class org.genomicsdb.reader.GenomicsDBQuery.Interval has no definition of serialVersionUID [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBQuery.java:[112,23] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[483,84] PARSER in org.genomicsdb.model.Coordinates.GenomicsDBColumnOrInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[5485,72] PARSER in org.genomicsdb.model.Coordinates.ContigInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[4407,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[10171,72] PARSER in org.genomicsdb.model.Coordinates.ContigInterval has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7553,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7594,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/build/src/main/java/org/genomicsdb/model/GenomicsDBExportConfiguration.java:[7635,30] non-transient instance field of a serializable class declared with a non-serializable type [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[54,27] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[139,58] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[79,39] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[206,31] previous possible 'this' escape happens here via invocation [INFO] [INFO] --- antrun:3.1.0:run (copy-native-libs) @ genomicsdb --- [INFO] Executing tasks [WARNING] [exec] The command attribute is deprecated. [exec] Please use the executable attribute and nested arg elements. [INFO] [exec] cp: cannot stat '/build/reproducible-path/genomicsdb-1.5.5/build/src/main/libtiledbgenomicsdb.dylib': No such file or directory [INFO] [exec] Result: 1 [WARNING] [exec] The command attribute is deprecated. [exec] Please use the executable attribute and nested arg elements. [INFO] [exec] cp: cannot stat '/build/reproducible-path/genomicsdb-1.5.5/build/src/main/libtiledbgenomicsdb.so': No such file or directory [INFO] [exec] Result: 1 [INFO] Executed tasks [INFO] [INFO] --- resources:3.3.1:testResources (default-testResources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.5/src/test/resources [INFO] [INFO] --- antrun:3.1.0:run (unzip-test-artifacts) @ genomicsdb --- [INFO] Executing tasks [INFO] [untar] Expanding: /build/reproducible-path/genomicsdb-1.5.5/build/test/test.tar into /build/reproducible-path/genomicsdb-1.5.5/build/test [INFO] Executed tasks [INFO] [INFO] --- compiler:3.13.0:testCompile (default-testCompile) @ genomicsdb --- [INFO] Recompiling the module because of changed dependency. [INFO] Compiling 12 source files with javac [debug target 17] to build/test-classes [WARNING] system modules path not set in conjunction with -source 17 [INFO] Annotation processing is enabled because one or more processors were found on the class path. A future release of javac may disable annotation processing unless at least one processor is specified by name (-processor), or a search path is specified (--processor-path, --processor-module-path), or annotation processing is enabled explicitly (-proc:only, -proc:full). Use -Xlint:-options to suppress this message. Use -proc:none to disable annotation processing. [WARNING] No processor claimed any of these annotations: /org.testng.annotations.BeforeClass,/org.testng.annotations.Test,/org.testng.annotations.DataProvider,/org.testng.annotations.BeforeMethod,/org.testng.annotations.AfterMethod [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,9] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[171,33] org.json.simple.parser.JSONParser in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,13] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[175,38] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[176,13] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[176,39] org.json.simple.JSONArray in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[181,17] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[181,44] org.json.simple.JSONObject in org.json.simple has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[201,18] org.json.simple.parser.ParseException in org.json.simple.parser has been deprecated [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[257,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[289,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[322,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[362,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[398,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[443,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[482,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [WARNING] /build/reproducible-path/genomicsdb-1.5.5/src/test/java/org/genomicsdb/importer/GenomicsDBImporterSpec.java:[536,9] found raw type: org.genomicsdb.reader.GenomicsDBFeatureReader missing type arguments for generic class org.genomicsdb.reader.GenomicsDBFeatureReader [INFO] [INFO] --- surefire:2.22.3:test (default-test) @ genomicsdb --- [INFO] [INFO] ------------------------------------------------------- [INFO] T E S T S [INFO] ------------------------------------------------------- [INFO] Running TestSuite 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),0.007736639,Cpu time(s),0.007255402 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.0046706149999999995,Cpu time(s),0.002848105 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.001033332,Cpu time(s),8.70937E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),6.31897E-4,Cpu time(s),6.85723E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),8.62552E-4,Cpu time(s),9.06909E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.41059E-4,Cpu time(s),4.55684E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.37615E-4,Cpu time(s),4.49585E-4 GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),8.694600000000001E-4,Cpu time(s),7.209429999999999E-4 [INFO] Tests run: 46, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 36.52 s - in TestSuite [INFO] [INFO] Results: [INFO] [INFO] Tests run: 46, Failures: 0, Errors: 0, Skipped: 0 [INFO] [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 01:39 min [INFO] Finished at: 2026-12-04T07:32:13+14:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake dh_prep -O--buildsystem=cmake debian/rules override_dh_auto_install-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Installing the Java part. dh_auto_install --buildsystem=maven /usr/lib/jvm/default-java/bin/java -noverify -cp /usr/share/maven/boot/plexus-classworlds-2.x.jar -Dmaven.home=/usr/share/maven -Dmaven.multiModuleProjectDirectory=/build/reproducible-path/genomicsdb-1.5.5 -Dclassworlds.conf=/etc/maven/m2-debian.conf -Dproperties.file.manual=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.properties org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.5/debian -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo --batch-mode -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.5/debian -Ddebian.package=libgenomicsdb-java -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo -Dinstall.to.usj=true org.debian.maven:debian-maven-plugin:2.6:install OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release. [INFO] Scanning for projects... [INFO] [INFO] ---------------------< org.genomicsdb:genomicsdb >---------------------- [INFO] Building org.genomicsdb:genomicsdb 1.5.5 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- debian:2.6:install (default-cli) @ genomicsdb --- [INFO] Cleaning pom file: /build/reproducible-path/genomicsdb-1.5.5/pom.xml.save with options: [INFO] --keep-pom-version --package=libgenomicsdb-java [INFO] --rules=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.rules [INFO] --ignore-rules=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.ignoreRules [INFO] --published-rules=/build/reproducible-path/genomicsdb-1.5.5/debian/maven.publishedRules [INFO] Install jar for genomicsdb into /usr/share/java [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 2.609 s [INFO] Finished at: 2026-12-04T07:32:25+14:00 [INFO] ------------------------------------------------------------------------ mh_resolve_dependencies --non-interactive --offline --build -plibgenomicsdb-java --base-directory=/build/reproducible-path/genomicsdb-1.5.5 --non-explore Analysing pom.xml... mh_unpatchpoms -plibgenomicsdb-java make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_install -O--buildsystem=cmake -Nlibgenomicsdb-java cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/genomicsdb-1.5.5/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-hts.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/ksort.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/thread_pool.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_defs.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kfunc.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/khash.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/klist.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcfutils.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_log.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf_sweep.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/faidx.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/synced_bcf_reader.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_endian.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/knetfile.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/cram.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kroundup.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/tbx.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hfile.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/khash_str2int.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/regidx.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/bgzf.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kseq.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kstring.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/sam.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kbitset.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_os.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-tiledb.a -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-tiledb.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb_constants.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb_storage.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb_utils.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.a -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.so.1.5.4 -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.so.1 -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.so.1.5.4" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/libgenomicsdb.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb_exception.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb_status.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb_utils.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/genomicsdb.pc -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_demo -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_demo" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/create_genomicsdb_workspace -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/create_genomicsdb_workspace" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf2genomicsdb_init -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf2genomicsdb_init" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf2genomicsdb -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf2genomicsdb" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/consolidate_genomicsdb_array -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/consolidate_genomicsdb_array" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/gt_mpi_gather -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/gt_mpi_gather" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcfdiff -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcfdiff" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf_histogram -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/vcf_histogram" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_bcf_generator -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_bcf_generator" to "/usr/lib/x86_64-linux-gnu/genomicsdb" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_importer -- Set non-toolchain portion of runtime path of "/build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/bin/test_genomicsdb_importer" to "/usr/lib/x86_64-linux-gnu/genomicsdb" make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' dh_install -O--buildsystem=cmake debian/rules execute_after_dh_install-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' # Setting the runpath of the jni library to only contain the path to the private libs. chrpath -r "/usr/lib/x86_64-linux-gnu/genomicsdb" /build/reproducible-path/genomicsdb-1.5.5/debian/libgenomicsdb-jni/usr/lib/jni/libgenomicsdbjni.so /build/reproducible-path/genomicsdb-1.5.5/debian/libgenomicsdb-jni/usr/lib/jni/libgenomicsdbjni.so: RUNPATH=/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/debian/libgenomicsdb-jni/usr/lib/jni/libgenomicsdbjni.so: new RUNPATH: /usr/lib/x86_64-linux-gnu/genomicsdb make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_installjavadoc -O--buildsystem=cmake Duplicate specification "author|A=s" for option "A" dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake dh_installexamples -O--buildsystem=cmake dh_installman -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_lintian -O--buildsystem=cmake dh_perl -O--buildsystem=cmake dh_link -O--buildsystem=cmake jh_installlibs -O--buildsystem=cmake jh_classpath -O--buildsystem=cmake Duplicate specification "version|V" for option "V" jh_manifest -O--buildsystem=cmake Duplicate specification "version|V" for option "V" jh_exec -O--buildsystem=cmake jh_depends -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake dh_fixperms -O--buildsystem=cmake dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dwz: debian/libgenomicsdb1/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-hts.so: DWARF compression not beneficial - old size 855098 new size 870650 dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-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 exp: it's probably a plugin dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-hts.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-tiledb.so' dh_installdeb -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake 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-jni' in '../libgenomicsdb-jni_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb-jni-dbgsym' in '../libgenomicsdb-jni-dbgsym_1.5.5-2_amd64.deb'. dpkg-deb: building package 'genomicsdb-tools' in '../genomicsdb-tools_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb1-dbgsym' in '../libgenomicsdb1-dbgsym_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb1' in '../libgenomicsdb1_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb-java' in '../libgenomicsdb-java_1.5.5-2_all.deb'. dpkg-deb: building package 'genomicsdb-tools-dbgsym' in '../genomicsdb-tools-dbgsym_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb-dev' in '../libgenomicsdb-dev_1.5.5-2_amd64.deb'. dpkg-genbuildinfo --build=binary -O../genomicsdb_1.5.5-2_amd64.buildinfo dpkg-genchanges --build=binary -O../genomicsdb_1.5.5-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . 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/25376/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/25376/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/25376 and its subdirectories I: Current time: Fri Dec 4 07:38:34 +14 2026 I: pbuilder-time-stamp: 1796319514 + false + set +x Thu Dec 3 17:38:34 UTC 2026 I: Signing ./b2/genomicsdb_1.5.5-2_amd64.buildinfo as genomicsdb_1.5.5-2_amd64.buildinfo.asc Thu Dec 3 17:38:35 UTC 2026 I: Signed ./b2/genomicsdb_1.5.5-2_amd64.buildinfo as ./b2/genomicsdb_1.5.5-2_amd64.buildinfo.asc Thu Dec 3 17:38:35 UTC 2026 - build #2 for genomicsdb/forky/amd64 on ionos15-amd64 done. Starting cleanup. All cleanup done. Thu Dec 3 17:38:35 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-IytUFz2o, removing. /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz: total 1372 drwxrwxr-x 2 jenkins jenkins 4096 Oct 31 10:46 b1 drwxrwxr-x 2 jenkins jenkins 4096 Oct 31 11:15 b2 -rw-rw-r-- 1 jenkins jenkins 3397 Oct 2 15:19 genomicsdb_1.5.5-2.dsc -rw------- 1 jenkins jenkins 1385390 Oct 31 10:46 rbuildlog.CmeadnY /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b1: total 151060 -rw-r--r-- 1 jenkins jenkins 1380590 Oct 31 10:46 build.log -rw-r--r-- 1 jenkins jenkins 107324284 Oct 31 10:46 genomicsdb-tools-dbgsym_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 1592140 Oct 31 10:46 genomicsdb-tools_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 29348 Oct 31 10:46 genomicsdb_1.5.5-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 3397 Oct 31 10:46 genomicsdb_1.5.5-2.dsc -rw-r--r-- 1 jenkins jenkins 21973 Oct 31 10:46 genomicsdb_1.5.5-2_amd64.buildinfo -rw-rw-r-- 1 jenkins jenkins 22855 Oct 31 10:46 genomicsdb_1.5.5-2_amd64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 3675 Oct 31 10:46 genomicsdb_1.5.5-2_amd64.changes -rw-r--r-- 1 jenkins jenkins 1265 Oct 31 10:46 genomicsdb_1.5.5-2_source.changes -rw-r--r-- 1 jenkins jenkins 2034984 Oct 31 10:46 libgenomicsdb-dev_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 409744 Oct 31 10:46 libgenomicsdb-java_1.5.5-2_all.deb -rw-r--r-- 1 jenkins jenkins 2049852 Oct 31 10:46 libgenomicsdb-jni-dbgsym_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 86564 Oct 31 10:46 libgenomicsdb-jni_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 37866184 Oct 31 10:46 libgenomicsdb1-dbgsym_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 1638932 Oct 31 10:46 libgenomicsdb1_1.5.5-2_amd64.deb /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b2: total 150880 -rw-rw-r-- 1 jenkins jenkins 1383245 Oct 31 11:15 build.log -rw-r--r-- 1 jenkins jenkins 107324284 Oct 31 11:15 genomicsdb-tools-dbgsym_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 1592140 Oct 31 11:15 genomicsdb-tools_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 29348 Oct 31 11:15 genomicsdb_1.5.5-2.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 3397 Oct 31 11:15 genomicsdb_1.5.5-2.dsc -rw-rw-r-- 1 jenkins jenkins 21973 Oct 31 11:15 genomicsdb_1.5.5-2_amd64.buildinfo -rw-rw-r-- 1 jenkins jenkins 22855 Oct 31 11:15 genomicsdb_1.5.5-2_amd64.buildinfo.asc -rw-rw-r-- 1 jenkins jenkins 3675 Oct 31 11:15 genomicsdb_1.5.5-2_amd64.changes -rw-rw-r-- 1 jenkins jenkins 1265 Oct 31 11:15 genomicsdb_1.5.5-2_source.changes -rw-r--r-- 1 jenkins jenkins 2034984 Oct 31 11:15 libgenomicsdb-dev_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 409744 Oct 31 11:15 libgenomicsdb-java_1.5.5-2_all.deb -rw-r--r-- 1 jenkins jenkins 2049852 Oct 31 11:15 libgenomicsdb-jni-dbgsym_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 86564 Oct 31 11:15 libgenomicsdb-jni_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 37866184 Oct 31 11:15 libgenomicsdb1-dbgsym_1.5.5-2_amd64.deb -rw-r--r-- 1 jenkins jenkins 1638932 Oct 31 11:15 libgenomicsdb1_1.5.5-2_amd64.deb Fri Oct 31 11:15:36 UTC 2025 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Fri Oct 31 11:15:37 UTC 2025 I: genomicsdb_1.5.5-2_amd64.changes: Format: 1.8 Date: Thu, 02 Oct 2025 17:02:39 +0200 Source: genomicsdb Binary: genomicsdb-tools genomicsdb-tools-dbgsym libgenomicsdb-dev libgenomicsdb-java libgenomicsdb-jni libgenomicsdb-jni-dbgsym libgenomicsdb1 libgenomicsdb1-dbgsym Architecture: amd64 all Version: 1.5.5-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: genomicsdb-tools - sparse array storage library for genomics (tools) libgenomicsdb-dev - sparse array storage library for genomics (development files) libgenomicsdb-java - sparse array storage library for genomics (Java library) libgenomicsdb-jni - sparse array storage library for genomics (Java native bindings) libgenomicsdb1 - sparse array storage library for genomics (shared libraries) Closes: 1116740 Changes: genomicsdb (1.5.5-2) unstable; urgency=medium . * Removing the nocheck annotation for the B-D testng (Closes: #1116740) Checksums-Sha1: bdbecf398b5f838458bfc1fe4a05bdcbed788de5 107324284 genomicsdb-tools-dbgsym_1.5.5-2_amd64.deb b434d2f6552909c88a224adf7e262d610d1ab36e 1592140 genomicsdb-tools_1.5.5-2_amd64.deb 8e789e430db08ef832f88b9f950388c805627ca7 21973 genomicsdb_1.5.5-2_amd64.buildinfo 7e31d1e1efa18f0710bbf955b3d252022f563446 2034984 libgenomicsdb-dev_1.5.5-2_amd64.deb 5dea9a40252a0a4cdf2e1502bccadff1cd7d53d0 409744 libgenomicsdb-java_1.5.5-2_all.deb 57f6577f81c9b392f7c4036240846173311a4c52 2049852 libgenomicsdb-jni-dbgsym_1.5.5-2_amd64.deb d9005794145ae747a7b5aa325893008221fba25b 86564 libgenomicsdb-jni_1.5.5-2_amd64.deb fcdb017dc195722b097ad991e01f2d15eb62c7a9 37866184 libgenomicsdb1-dbgsym_1.5.5-2_amd64.deb f496b891f298ce5c1795bb1c73e3ad6eb21e5d68 1638932 libgenomicsdb1_1.5.5-2_amd64.deb Checksums-Sha256: e2f6401185191437f0e465666eece22b6c25073150deeecf82f418aadd193639 107324284 genomicsdb-tools-dbgsym_1.5.5-2_amd64.deb 65338ec560d0b9cef18df78e4ac6e75a89a7a9a11a5d57d30ababd635999f578 1592140 genomicsdb-tools_1.5.5-2_amd64.deb e57c5de963b95e663a5f33b23c82e0bac3ff1c99bf145d1e664933bc9b8b4521 21973 genomicsdb_1.5.5-2_amd64.buildinfo 3e7318d7f282bafd794aedb528ef8d1cca45b447184c9eadded9540aba11edc8 2034984 libgenomicsdb-dev_1.5.5-2_amd64.deb ec2b5be8ba865e38d1373c4867614a96293eece3e1b58594e709285d92094c73 409744 libgenomicsdb-java_1.5.5-2_all.deb f50e5f00dd0203e88a625879e14a074e51fc308896a54f80efdf1061dce5e249 2049852 libgenomicsdb-jni-dbgsym_1.5.5-2_amd64.deb d69520ced55d4d96db8f3c91bb582e8c10d0fdd13abec0fea1f378e2a1f77e47 86564 libgenomicsdb-jni_1.5.5-2_amd64.deb f82d16c6cc13ecf1804e3a94b6c05525fb0bfb3649a519b7d4a8db0bbe0e0801 37866184 libgenomicsdb1-dbgsym_1.5.5-2_amd64.deb 9970e2d01d328eb810b02fc2c145054c10491d9522a14fd43ddd52dff9dd98ac 1638932 libgenomicsdb1_1.5.5-2_amd64.deb Files: 7ca507117206486a3f99a3a2849ee984 107324284 debug optional genomicsdb-tools-dbgsym_1.5.5-2_amd64.deb cba8c29e10b5408df2b05bd42fdb5ebd 1592140 science optional genomicsdb-tools_1.5.5-2_amd64.deb 0582cc94f82f6f9e4fa8bfe89990fabd 21973 science optional genomicsdb_1.5.5-2_amd64.buildinfo 9caadb8b160204d953170cef20a5cbdf 2034984 libdevel optional libgenomicsdb-dev_1.5.5-2_amd64.deb 7b092b28958fa56002a798ef943a9348 409744 java optional libgenomicsdb-java_1.5.5-2_all.deb f9fb60e9a7bf8b6ba555da638c63bfaf 2049852 debug optional libgenomicsdb-jni-dbgsym_1.5.5-2_amd64.deb f360f219e798ca4afeb228923905f91b 86564 java optional libgenomicsdb-jni_1.5.5-2_amd64.deb 2b83729c29b33a9293e0fe664d45470f 37866184 debug optional libgenomicsdb1-dbgsym_1.5.5-2_amd64.deb afd55d7a12703c7601b84007fd217247 1638932 libs optional libgenomicsdb1_1.5.5-2_amd64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/amd64/genomicsdb_1.5.5-2.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/amd64/genomicsdb_1.5.5-2.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/forky/amd64/genomicsdb_1.5.5-2.build1.log.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-10-31 10:46:13.149682001 +0000 +++ b2/build.log 2025-10-31 11:15:35.459659125 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Thu Oct 30 22:39:42 -12 2025 -I: pbuilder-time-stamp: 1761907182 +I: Current time: Fri Dec 4 07:09:15 +14 2026 +I: pbuilder-time-stamp: 1796317755 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/forky-reproducible-base.tgz] I: copying local configuration @@ -52,53 +52,85 @@ dpkg-source: info: applying fmt10.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/4101407/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/25376/tmp/hooks/D01_modify_environment starting +debug: Running on ionos15-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 Dec 3 17:09 /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/25376/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/25376/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=40 ' - DISTRIBUTION='forky' - HOME='/root' - HOST_ARCH='amd64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="3" [2]="3" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu") + BASH_VERSION='5.3.3(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=42 ' + DIRSTACK=() + DISTRIBUTION=forky + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=x86_64 + HOST_ARCH=amd64 IFS=' ' - INVOCATION_ID='d4deea2ec77c4b889b846e78cfcef225' - 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='4101407' - PS1='# ' - PS2='> ' + INVOCATION_ID=4c746f87e9be44a0ac3b5098db817aa9 + 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=25376 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.WjSuggWz/pbuilderrc_pay4 --distribution forky --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b1 --logfile b1/build.log genomicsdb_1.5.5-2.dsc' - SUDO_GID='110' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='105' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://46.16.76.132:3128' + 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.WjSuggWz/pbuilderrc_OquW --distribution forky --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/forky-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b2 --logfile b2/build.log genomicsdb_1.5.5-2.dsc' + SUDO_GID=111 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=106 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://213.165.73.152:3128 I: uname -a - Linux ionos1-amd64 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux + Linux i-capture-the-hostname 6.12.48+deb13-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.48-1 (2025-09-20) x86_64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/4101407/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/25376/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -692,7 +724,7 @@ Get: 496 http://deb.debian.org/debian forky/main amd64 rapidjson-dev all 1.1.0+dfsg2-7.6 [98.2 kB] Get: 497 http://deb.debian.org/debian forky/main amd64 testng all 6.9.12-4 [795 kB] Get: 498 http://deb.debian.org/debian forky/main amd64 uuid-dev amd64 2.41.2-4 [49.9 kB] -Fetched 390 MB in 4s (94.0 MB/s) +Fetched 390 MB in 16s (24.4 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 ... 19869 files and directories currently installed.) @@ -2309,8 +2341,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Fri Oct 31 10:41:10 UTC 2025. -Universal Time is now: Fri Oct 31 10:41:10 UTC 2025. +Local time is now: Thu Dec 3 17:17:09 UTC 2026. +Universal Time is now: Thu Dec 3 17:17:09 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:amd64 (1.17.0-2+b1) ... @@ -2941,7 +2973,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/genomicsdb-1.5.5/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../genomicsdb_1.5.5-2_source.changes +I: user script /srv/workspace/pbuilder/25376/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for forky +I: user script /srv/workspace/pbuilder/25376/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/genomicsdb-1.5.5/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../genomicsdb_1.5.5-2_source.changes dpkg-buildpackage: info: source package genomicsdb dpkg-buildpackage: info: source version 1.5.5-2 dpkg-buildpackage: info: source distribution unstable @@ -2967,7 +3003,7 @@ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' 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 @@ -3068,8 +3104,8 @@ command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. --- Configuring done (3.7s) --- Generating done (0.3s) +-- Configuring done (26.5s) +-- Generating done (8.0s) CMake Warning: Manually-specified variables were not used by the project: @@ -3132,8 +3168,8 @@ command to set the policy and suppress this warning. This warning is for project developers. Use -Wno-dev to suppress it. --- Configuring done (1.5s) --- Generating done (0.9s) +-- Configuring done (4.3s) +-- Generating done (9.0s) -- Build files have been written to: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu # Configuring the Java part using Maven. # First we put the arch triplet in d/maven.properties for the tests. @@ -3145,11 +3181,11 @@ mh_patchpoms -plibgenomicsdb-java --debian-build --keep-pom-version --maven-repo=/build/reproducible-path/genomicsdb-1.5.5/debian/maven-repo make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_linkjars -O--buildsystem=cmake -Duplicate specification "unlink|u" for option "u" +Duplicate specification "u=s" for option "u" debian/rules override_dh_auto_build-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_build - cd obj-x86_64-linux-gnu && make -j40 INSTALL="install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j42 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu//CMakeFiles/progress.marks @@ -3159,203 +3195,209 @@ make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/depend make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build make[4]: Nothing to be done for 'CMakeFiles/protobuf_ep.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 0%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o [ 0%] Built target protobuf_ep -[ 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/array/array_read_state.cc.o -[ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o -[ 2%] 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_sorted_write_state.cc.o -[ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -[ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o -[ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o -[ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o -[ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/knetfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/knetfile.c -[ 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/hfile_libcurl.c.o -[ 4%] Building CXX object 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genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_read_state.cc +[ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec 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genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o +[ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata 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genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o -MF CMakeFiles/genomicsdb-hts.dir/errmod.c.o.d -o CMakeFiles/genomicsdb-hts.dir/errmod.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/errmod.c -[ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/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 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 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/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/multipart.c -[ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o -MF CMakeFiles/genomicsdb-hts.dir/probaln.c.o.d -o CMakeFiles/genomicsdb-hts.dir/probaln.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/probaln.c +[ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter_bit_shuffle.cc 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_filter_delta_encode.cc +[ 6%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o +[ 6%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o +[ 6%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o +[ 6%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/array/array_sorted_write_state.cc +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_gzip.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_lz4.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o -MF CMakeFiles/genomicsdb-hts.dir/region.c.o.d -o CMakeFiles/genomicsdb-hts.dir/region.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/region.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_rle.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/regidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/regidx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/regidx.c -[ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -MF CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o.d -o CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/synced_bcf_reader.c -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o -MF CMakeFiles/genomicsdb-hts.dir/sam.c.o.d -o CMakeFiles/genomicsdb-hts.dir/sam.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/sam.c +[ 6%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/codec_zstd.cc +[ 6%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle/bitshuffle_core.c -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 12%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o +[ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o -MF CMakeFiles/genomicsdb-hts.dir/kfunc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/kfunc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/kfunc.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle/iochain.c -[ 12%] Generating source/header files from .proto files +[ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration 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-ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -MF CMakeFiles/genomicsdb-hts.dir/bgzf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/bgzf.c +[ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/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-1.5.5/genomicsdb-htslib/bcf_sr_sort.c +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection 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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/header.c.o -MF CMakeFiles/genomicsdb-hts.dir/header.c.o.d -o CMakeFiles/genomicsdb-hts.dir/header.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/header.c +[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/faidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/faidx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/faidx.c +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/expressions/expression.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile.c +[ 10%] Generating source/header files from .proto files +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c +[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o +[ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o cd /build/reproducible-path/genomicsdb-1.5.5/src/resources && /usr/bin/protoc --cpp_out=/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources genomicsdb_coordinates.proto genomicsdb_callsets_mapping.proto genomicsdb_export_config.proto genomicsdb_import_config.proto genomicsdb_vid_mapping.proto +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/fragment.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_net.c +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/read_state.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -MF CMakeFiles/genomicsdb-hts.dir/hts_os.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hts_os.c +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o -MF CMakeFiles/genomicsdb-hts.dir/md5.c.o.d -o CMakeFiles/genomicsdb-hts.dir/md5.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/md5.c +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o -MF CMakeFiles/genomicsdb-hts.dir/probaln.c.o.d -o CMakeFiles/genomicsdb-hts.dir/probaln.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/probaln.c +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o -MF CMakeFiles/genomicsdb-hts.dir/realn.c.o.d -o CMakeFiles/genomicsdb-hts.dir/realn.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/realn.c +[ 11%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o +[ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/book_keeping.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o -MF CMakeFiles/genomicsdb-hts.dir/multipart.c.o.d -o CMakeFiles/genomicsdb-hts.dir/multipart.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/multipart.c +[ 13%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/write_state.cc +[ 13%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata.cc +[ 13%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata_iterator.cc +[ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/regidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/regidx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/regidx.c +[ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/error.cc +[ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o -MF CMakeFiles/genomicsdb-hts.dir/region.c.o.d -o CMakeFiles/genomicsdb-hts.dir/region.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/region.c +[ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o -MF CMakeFiles/genomicsdb-hts.dir/sam.c.o.d -o CMakeFiles/genomicsdb-hts.dir/sam.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/sam.c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c: In function 'libcurl_open': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c:1335:9: warning: 'CURLINFO_CONTENT_LENGTH_DOWNLOAD' is deprecated: since 7.55.0. Use CURLINFO_CONTENT_LENGTH_DOWNLOAD_T [-Wdeprecated-declarations] 1335 | if (curl_easy_getinfo(fp->easy, CURLINFO_CONTENT_LENGTH_DOWNLOAD, | ^~ -[ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o In file included from /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/hfile_libcurl.c:47: /usr/include/x86_64-linux-gnu/curl/curl.h:2932:3: note: declared here 2932 | CURLINFO_CONTENT_LENGTH_DOWNLOAD | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o -MF CMakeFiles/genomicsdb-hts.dir/tbx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/tbx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/tbx.c -[ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -[ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/expressions/expression.cc +[ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/hilbert_curve.cc +[ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -MF CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o.d -o CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/synced_bcf_reader.c +[ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf_sweep.c -[ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/textutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/textutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/textutils.c -[ 14%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -MF CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o.d -o CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/thread_pool.c -[ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/book_keeping.cc -[ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/fragment.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/read_state.cc -[ 15%] Built target PROTOBUF_GENERATED_CXX_TARGET -[ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf.c -[ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/fragment/write_state.cc +[ 16%] Built target PROTOBUF_GENERATED_CXX_TARGET +[ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/mem_utils.cc +[ 17%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/progress_bar.cc make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/depend +[ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o -MF CMakeFiles/genomicsdb-hts.dir/tbx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/tbx.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/tbx.c cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/DependInfo.cmake "--color=" -[ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/metadata/metadata_iterator.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcfutils.c -[ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_codecs.c [ 17%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o -MF 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 /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc -[ 17%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o +[ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/textutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/textutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/textutils.c +[ 17%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/uri.cc +[ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcf.c +[ 18%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -MF CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o.d -o CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/thread_pool.c +[ 18%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/vcfutils.c +[ 18%] 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc -[ 17%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_decode.c -[ 17%] 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/misc/utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/utils.cc +[ 18%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations_columnar.cc -[ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -[ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/error.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/hilbert_curve.cc [ 19%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o cd 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc -[ 19%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o +[ 20%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_codecs.c +[ 20%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc -[ 19%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api 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-fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_cell.cc -[ 20%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o +[ 20%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_storage_manager.cc -[ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api 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-Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc -[ 20%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat 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-o CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_external.c -[ 21%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_index.c -[ 21%] Building 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/mem_utils.cc -[ 21%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -cd 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc [ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_handler.cc -[ 22%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_io.c -[ 22%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_samtools.c -[ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o +[ 22%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant.cc +[ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_buffer.cc +[ 23%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_encode.c +[ 23%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc +[ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_fs.cc +[ 24%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc +[ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3373,13 +3415,14 @@ /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +[ 24%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_external.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:25: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3397,43 +3440,15 @@ /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 23%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -[ 23%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc +[ 24%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc -[ 23%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc:23: -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 290 | : std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, - from /usr/include/c++/15/string:49, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: -/usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here - 129 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -[ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/progress_bar.cc -In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations_columnar.cc:23: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3494,30 +3509,60 @@ /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__ | ^~~~~~ -[ 24%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc -[ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc +[ 25%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o +[ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_index.c +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc +In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_cell.cc:23: +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 290 | : std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, + from /usr/include/c++/15/string:49, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:26: +/usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here + 129 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc:23: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations_columnar.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_construct.h:61, - from /usr/include/c++/15/bits/stl_tempbuf.h:61, - from /usr/include/c++/15/memory:68, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:26: +In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, + from /usr/include/c++/15/string:49, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/genomicsdb_importer.cc +[ 25%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_io.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc:25: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_handler.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3530,14 +3575,18 @@ from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_array_schema.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +[ 25%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_samtools.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_cell.cc:23: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3550,14 +3599,11 @@ from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:26: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 25%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_file_base.cc -[ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -3578,8 +3624,33 @@ /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/memory_measure.cc +[ 26%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_stats.c +[ 26%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/mFILE.c +In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc:25: +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 290 | : std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, + from /usr/include/c++/15/string:49, + from /usr/include/c++/15/bits/locale_classes.h:42, + from /usr/include/c++/15/bits/ios_base.h:43, + from /usr/include/c++/15/ios:46, + from /usr/include/c++/15/bits/ostream.h:43, + from /usr/include/c++/15/ostream:42, + from /usr/include/c++/15/iostream:43, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_array_schema.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_array_schema.cc:24: +/usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here + 129 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +[ 26%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/open_trace_file.c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc: In function 'int tiledb_metadata_set_schema(TileDB_MetadataSchema*, const char*, const char**, int, int64_t, const int*, const int*, const int*, const int*)': /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/c_api/tiledb.cc:1131:22: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1131 | (int*) malloc((attribute_num)*sizeof(int)); @@ -3587,6 +3658,7 @@ /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__ | ^~~~~~ +[ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3609,29 +3681,31 @@ /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc +[ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc +[ 27%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager_config.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:25: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_data.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, - from /usr/include/c++/15/string:49, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/gt_remapper.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/gt_remapper_template_definition.h:25, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:23: +In file included from /usr/include/c++/15/bits/stl_construct.h:61, + from /usr/include/c++/15/bits/stl_tempbuf.h:61, + from /usr/include/c++/15/memory:68, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/histogram.cc -In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc:23: +[ 28%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_posixfs.cc +[ 28%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4/lz4.c +In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3644,16 +3718,16 @@ from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:26: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/gt_remapper.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/gt_remapper_template_definition.h:25, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +[ 28%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/genomicsdb_importer.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/variant_field_handler.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3666,13 +3740,11 @@ from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:27: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc:24: +In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3685,12 +3757,10 @@ from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:26: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -3717,7 +3787,8 @@ from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3730,11 +3801,13 @@ from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/query_variants.cc:23: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +[ 28%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_file_base.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_INFO_fields(const Variant&)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:622:37: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 622 | auto stringified = std::move(m_field_handlers[bcf_ht_type]->stringify_2D_vector(*(BCF_INFO_GET_FIELD_INFO_PTR(curr_tuple)))); @@ -3757,6 +3830,16 @@ 1106 | auto null_PL_ptr = std::move(std::unique_ptr(nullptr)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:1106:37: note: remove 'std::move' call +[ 29%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/pooled_alloc.c +[ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc +[ 30%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/rANS_static.c +[ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/memory_measure.cc +[ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/histogram.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc: In member function 'virtual void AlleleCountOperator::operate_on_columnar_cell(const GenomicsDBColumnarCell&, const VariantQueryConfig&, const VariantArraySchema&)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:984:36: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 984 | auto REF_ALT_pair = std::move(std::pair( @@ -3768,14 +3851,21 @@ 987 | m_cell_ALT_offsets[ALT_idx+1]-m_cell_ALT_offsets[ALT_idx]-1))); //-1 to ignore delim char | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/query_operations/variant_operations.cc:984:36: note: remove 'std::move' call -[ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/lut.cc +[ 30%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/string_alloc.c +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc: In member function 'std::vector GenomicsDBMultiDVectorField::parse_and_store_numeric(const char*, size_t)': +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] + 436 | auto total_size_of_multi_d_data_vec = std::move(GenomicsDBMultiDVectorField::parse_and_store_numeric( + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 437 | m_rw_field_data, *m_field_info_ptr, + | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ + 438 | str, str_length)); + | ~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/load_operators.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:32: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3788,17 +3878,29 @@ from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/vid_mapper.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:26: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_file_base.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_text_file.h:33, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:30: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o +[ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_pb.cc +[ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc -[ 28%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/cram_stats.c -[ 28%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/mFILE.c +[ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc +[ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o +cd 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_sql.cc +[ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf 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32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf 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/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/genomicsdb_logger.cc +[ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -3824,34 +3926,18 @@ /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 28%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/uri.cc -[ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc -[ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper_sql.cc -In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc:27: -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 290 | : std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_algobase.h:65, - from /usr/include/c++/15/bits/specfun.h:43, - from /usr/include/c++/15/cmath:3913, - from /usr/include/fmt/format.h:36, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc:25: -/usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here - 129 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ +[ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf_adapter.cc +[ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc +[ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf2binary.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:32: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc:27: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3865,53 +3951,43 @@ from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_file_base.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader_text_file.h:33, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader_text_file.cc:30: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/known_field_info.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc:24: +/usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here + 129 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +[ 34%] Building C object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cc -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/hfile_genomicsdb.c +[ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/htslib_fs_adapter.cc +[ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/variant_query_config.cc +In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc:27: +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 290 | : std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/15/bits/stl_algobase.h:65, + from /usr/include/c++/15/bits/specfun.h:43, + from /usr/include/c++/15/cmath:3913, + from /usr/include/fmt/format.h:36, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/loader/tiledb_loader.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 29%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/open_trace_file.c -[ 30%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/pooled_alloc.c -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc: In member function 'std::vector GenomicsDBMultiDVectorField::parse_and_store_numeric(const char*, size_t)': -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] - 436 | auto total_size_of_multi_d_data_vec = std::move(GenomicsDBMultiDVectorField::parse_and_store_numeric( - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 437 | m_rw_field_data, *m_field_info_ptr, - | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ - 438 | str, str_length)); - | ~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: note: remove 'std::move' call -[ 30%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/misc/utils.cc -[ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -[ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_buffer.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/timer.cc -[ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager.cc -[ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec 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CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_fs.cc -[ 31%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_manager_config.cc -[ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/genomicsdb_logger.cc -[ 31%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/rANS_static.c -[ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc -[ 33%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/src/storage/storage_posixfs.cc -[ 33%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib/cram/string_alloc.c In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc:27: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc:23: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -3924,26 +4000,10 @@ from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/gt_common.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/known_field_info.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/known_field_info.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf_adapter.cc -[ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc -[ 33%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/codec 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src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/vcf2binary.cc -[ 34%] Building C object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cc -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/hfile_genomicsdb.c -[ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/htslib_fs_adapter.cc -[ 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/variant_query_config.cc [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, @@ -3989,51 +4049,20 @@ /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc:23: -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 290 | : std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, - from /usr/include/c++/15/string:49, - from /usr/include/c++/15/bits/locale_classes.h:42, - from /usr/include/c++/15/bits/ios_base.h:43, - from /usr/include/c++/15/ios:46, - from /usr/include/c++/15/bits/ostream.h:43, - from /usr/include/c++/15/ostream:42, - from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: -/usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here - 129 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ +[ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/pb_config.cc +[ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/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-1.5.5/src/main/cpp/src/api/annotation_service.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void VidMapper::parse_string_length_descriptor(const char*, const char*, size_t, FieldLengthDescriptor&, size_t)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:757:47: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 757 | auto length_value_upper_case_str = std::move(std::string(length_value_str)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:757:47: note: remove 'std::move' call -[ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/pb_config.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void FileBasedVidMapper::common_constructor_initialization(const rapidjson::Value&)': /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/src/main/cpp/src/utils/vid_mapper.cc:1269:40: note: remove 'std::move' call -[ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/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-1.5.5/src/main/cpp/src/api/annotation_service.cc -[ 37%] Linking C shared library libgenomicsdb-hts.so -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdb-hts.dir/link.txt --verbose=1 -/usr/bin/cc -fPIC -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--dependency-file=CMakeFiles/genomicsdb-hts.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libgenomicsdb-hts.so -o libgenomicsdb-hts.so "CMakeFiles/genomicsdb-hts.dir/kfunc.c.o" "CMakeFiles/genomicsdb-hts.dir/knetfile.c.o" "CMakeFiles/genomicsdb-hts.dir/kstring.c.o" "CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o" "CMakeFiles/genomicsdb-hts.dir/bgzf.c.o" "CMakeFiles/genomicsdb-hts.dir/errmod.c.o" "CMakeFiles/genomicsdb-hts.dir/faidx.c.o" "CMakeFiles/genomicsdb-hts.dir/header.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o" "CMakeFiles/genomicsdb-hts.dir/hts.c.o" "CMakeFiles/genomicsdb-hts.dir/hts_os.c.o" "CMakeFiles/genomicsdb-hts.dir/md5.c.o" "CMakeFiles/genomicsdb-hts.dir/multipart.c.o" "CMakeFiles/genomicsdb-hts.dir/probaln.c.o" "CMakeFiles/genomicsdb-hts.dir/realn.c.o" "CMakeFiles/genomicsdb-hts.dir/regidx.c.o" "CMakeFiles/genomicsdb-hts.dir/region.c.o" "CMakeFiles/genomicsdb-hts.dir/sam.c.o" "CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o" "CMakeFiles/genomicsdb-hts.dir/tbx.c.o" "CMakeFiles/genomicsdb-hts.dir/textutils.c.o" "CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf.c.o" "CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o" /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 37%] Built target genomicsdb-hts -[ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -4048,12 +4077,6 @@ /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc: In member function 'const bool GenomicsDBConfigBase::has_array_name(int) const': -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc:101:53: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'const int' [-Wsign-compare] - 101 | (!m_single_array_name && m_array_names.size() > rank)) { - | ~~~~~~~~~~~~~~~~~~~~~^~~~~~ -[ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_field.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -4076,24 +4099,45 @@ /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | 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-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc +[ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_field.cc +[ 38%] Linking C shared library libgenomicsdb-hts.so +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdb-hts.dir/link.txt --verbose=1 +/usr/bin/cc -fPIC -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--dependency-file=CMakeFiles/genomicsdb-hts.dir/link.d -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libgenomicsdb-hts.so -o libgenomicsdb-hts.so "CMakeFiles/genomicsdb-hts.dir/kfunc.c.o" "CMakeFiles/genomicsdb-hts.dir/knetfile.c.o" "CMakeFiles/genomicsdb-hts.dir/kstring.c.o" "CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o" "CMakeFiles/genomicsdb-hts.dir/bgzf.c.o" "CMakeFiles/genomicsdb-hts.dir/errmod.c.o" "CMakeFiles/genomicsdb-hts.dir/faidx.c.o" "CMakeFiles/genomicsdb-hts.dir/header.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o" "CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o" "CMakeFiles/genomicsdb-hts.dir/hts.c.o" "CMakeFiles/genomicsdb-hts.dir/hts_os.c.o" "CMakeFiles/genomicsdb-hts.dir/md5.c.o" "CMakeFiles/genomicsdb-hts.dir/multipart.c.o" "CMakeFiles/genomicsdb-hts.dir/probaln.c.o" "CMakeFiles/genomicsdb-hts.dir/realn.c.o" "CMakeFiles/genomicsdb-hts.dir/regidx.c.o" "CMakeFiles/genomicsdb-hts.dir/region.c.o" "CMakeFiles/genomicsdb-hts.dir/sam.c.o" "CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o" "CMakeFiles/genomicsdb-hts.dir/tbx.c.o" "CMakeFiles/genomicsdb-hts.dir/textutils.c.o" "CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o" "CMakeFiles/genomicsdb-hts.dir/vcf.c.o" "CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o" "CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o" /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 38%] Built target genomicsdb-hts [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_plink.cc +[ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_utils.cc +[ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_json_processor.cc +[ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_coordinates.pb.cc +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc: In member function 'const bool GenomicsDBConfigBase::has_array_name(int) const': +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/genomicsdb_config_base.cc:101:53: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'const int' [-Wsign-compare] + 101 | (!m_single_array_name && m_array_names.size() > rank)) { + | ~~~~~~~~~~~~~~~~~~~~~^~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc: In member function 'rapidjson::Document GenomicsDBConfigBase::read_from_file(const std::string&, int)': /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc:193:43: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 193 | rapidjson::Document json_doc = std::move(parse_json_file(filename)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc:193:43: note: remove 'std::move' call +[ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc: In member function 'void GenomicsDBImportConfig::read_from_file(const std::string&, int)': /build/reproducible-path/genomicsdb-1.5.5/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)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_callsets_mapping.pb.cc /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/config/json_config.cc:704:43: note: remove 'std::move' call -[ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_utils.cc -[ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb_json_processor.cc -[ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_coordinates.pb.cc +[ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_export_config.pb.cc +[ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_import_config.pb.cc +[ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_vid_mapping.pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -4112,14 +4156,6 @@ /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_callsets_mapping.pb.cc -[ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_export_config.pb.cc -[ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_import_config.pb.cc -[ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/genomicsdb_vid_mapping.pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -4142,14 +4178,14 @@ make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/depend make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 40%] Linking CXX static library libgenomicsdb-tiledb.a cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -P CMakeFiles/tiledb_static.dir/cmake_clean_target.cmake @@ -4165,46 +4201,46 @@ [ 41%] Built target tiledb_static make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/depend +make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend -make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build @@ -4212,69 +4248,69 @@ make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make 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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_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -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 -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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build +make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -[ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -[ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -[ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o +[ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -MF CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o.d -o CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_array_schema.cc [ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -[ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -[ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -[ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -MF CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d -o CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -MF CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o.d -o CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -MF CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d -o CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc -[ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o +[ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -MF CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d -o CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_dense_array_api.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 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-MT genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -MF CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d -o CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_tiledb_utils.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -MF CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d -o CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_book_keeping.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -MF CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d -o CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc +[ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -MF CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o.d -o CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc +[ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o +[ 42%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o +[ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -MF CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d -o CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/expressions/test_expressions.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -MF CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d -o CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec_filter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -MF CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d -o CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/array/test_array_schema.cc +[ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o +[ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -MF CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d -o CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_tiledb_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -MF CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o.d -o CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/c_api/test_sparse_array_api.cc -[ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -MF CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d -o CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -MF CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d -o CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/benchmark/test_print_book_keeping.cc +[ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o [ 43%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o [ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -[ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -MF CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d -o CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec_filter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -MF CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o.d -o CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_mem_utils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -MF CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o.d -o CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/expressions/test_filter_api.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -MF CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d -o CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/expressions/test_expressions.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -MF CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d -o CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/codec/test_codec.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" @@ -4289,10 +4325,10 @@ make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 45%] Linking CXX executable test_print_array_schema -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_array_schema.dir/link.txt --verbose=1 -[ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o +[ 45%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -MF CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o.d -o CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc +[ 46%] Linking CXX executable test_print_array_schema +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_array_schema.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/DependInfo.cmake "--color=" @@ -4309,6 +4345,11 @@ make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 47%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -MF CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o.d -o CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/storage_manager/test_storage_buffer.cc +[ 47%] Linking CXX executable test_print_book_keeping +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_book_keeping.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_print_array_schema.dir/link.d CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -o test_print_array_schema ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 47%] Built target test_print_array_schema make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" @@ -4317,49 +4358,47 @@ make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 47%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -MF CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o.d -o CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_3d.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_print_array_schema.dir/link.d CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -o test_print_array_schema ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" -[ 47%] Built target test_print_array_schema make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 47%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -MF CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o.d -o CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_aio_read_dense.cc +[ 47%] Built target test_print_book_keeping +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 48%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -MF CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d -o CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_aio_write_dense.cc -[ 48%] Linking CXX executable test_print_book_keeping -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_book_keeping.dir/link.txt --verbose=1 -[ 49%] Linking CXX executable tiledb_array_3d -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_3d.dir/link.txt --verbose=1 -[ 49%] Linking CXX executable tiledb_array_aio_read_dense -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_read_dense.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples 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genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o +[ 48%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -MF CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o.d -o CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_consolidate.cc +[ 48%] Linking CXX executable tiledb_array_aio_read_dense +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_read_dense.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 49%] Linking CXX executable tiledb_array_3d +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_3d.dir/link.txt --verbose=1 [ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -MF CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d -o CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_create_dense.cc +[ 49%] Linking CXX executable tiledb_array_aio_write_dense +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_write_dense.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu 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test_print_book_keeping ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 49%] Built target test_print_book_keeping make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/DependInfo.cmake "--color=" +[ 50%] Linking CXX executable tiledb_array_consolidate +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_consolidate.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o +[ 50%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -MF CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o.d -o CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_dense.cc -[ 50%] Linking CXX executable tiledb_array_consolidate -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_consolidate.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_aio_read_dense.dir/link.d CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o -o tiledb_array_aio_read_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 50%] Linking CXX executable tiledb_array_create_dense -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_dense.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_aio_write_dense.dir/link.d CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -o tiledb_array_aio_write_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx [ 50%] 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 51%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse.cc +[ 52%] Linking CXX executable tiledb_array_create_sparse +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_sparse.dir/link.txt --verbose=1 +[ 52%] Linking CXX executable tiledb_array_iterator_dense +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_dense.dir/link.txt --verbose=1 +[ 52%] Linking CXX executable tiledb_array_create_dense +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_dense.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_3d.dir/link.d CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -o tiledb_array_3d ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 52%] Built target tiledb_array_3d make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/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_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o +[ 52%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse_filter.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_3d.dir/link.d CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -o tiledb_array_3d ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_aio_write_dense.dir/link.d CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -o tiledb_array_aio_write_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 51%] Built target tiledb_array_3d -[ 51%] Built target tiledb_array_aio_write_dense +[ 52%] 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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make 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genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -MF CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d -o CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_sparse.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples 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tiledb_array_iterator_dense -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_dense.dir/link.txt --verbose=1 -[ 54%] Linking CXX executable tiledb_array_iterator_sparse_filter -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.txt --verbose=1 -[ 54%] Linking CXX executable tiledb_array_iterator_sparse -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_consolidate.dir/link.d CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -o tiledb_array_consolidate ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_mem_utils.dir/link.d 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/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" +[ 54%] Linking CXX executable tiledb_array_iterator_sparse_filter +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build +make -f 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-D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -MF CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_mpi_io_dense.cc +[ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_2.cc [ 55%] Linking CXX executable tiledb_array_parallel_consolidate_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.txt --verbose=1 -In file included from /usr/include/c++/15/bits/basic_string.h:51, - from /usr/include/c++/15/string:56: -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++/15/string_view:340:25, - inlined from 'std::string_view get_segment(std::string_view, int)' at /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:819:20: -/usr/include/c++/15/string_view:74:5: warning: 'pos' may be used uninitialized [-Wmaybe-uninitialized] - 74 | if (__pos > __size) - | ^~ -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc: In function 'std::string_view get_segment(std::string_view, int)': -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:806:26: note: 'pos' was declared here - 806 | std::string::size_type pos; - | ^~~ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_create_sparse.dir/link.d CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -o tiledb_array_create_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 55%] Built target tiledb_array_create_sparse -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" +[ 55%] Linking CXX executable tiledb_array_parallel_read_dense_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_create_dense.dir/link.d CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -o tiledb_array_create_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 55%] 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_1.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_dense.dir/link.d CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -o tiledb_array_iterator_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 55%] 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/build +[ 55%] Built target tiledb_array_create_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' +[ 55%] 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 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -MF CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_mpi_io_dense.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 55%] 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_1.cc [ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o +[ 56%] Linking CXX executable test_array_schema cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_2.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -o tiledb_array_iterator_sparse_filter ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema.dir/link.txt --verbose=1 +[ 56%] Linking CXX executable tiledb_array_parallel_consolidate_sparse +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.txt --verbose=1 +[ 56%] Linking CXX executable test_mem_utils +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_dense.dir/link.d CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -o tiledb_array_iterator_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 56%] Built target tiledb_array_iterator_sparse_filter +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mem_utils.dir/link.txt --verbose=1 +[ 56%] Built target tiledb_array_iterator_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/depend -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse.dir/link.d CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -o tiledb_array_iterator_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 56%] Linking CXX executable tiledb_array_parallel_read_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.txt --verbose=1 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_1.cc [ 56%] Linking CXX executable tiledb_array_parallel_read_dense_1 -[ 57%] Linking CXX executable tiledb_array_parallel_read_mpi_io_dense cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.txt --verbose=1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.txt --verbose=1 -[ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_1.cc -[ 57%] Built target tiledb_array_iterator_sparse +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -o tiledb_array_iterator_sparse_filter ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 56%] Built target tiledb_array_iterator_sparse_filter make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_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 +[ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_2.cc +[ 56%] Linking CXX executable tiledb_array_parallel_read_sparse_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.txt --verbose=1 +[ 56%] Linking CXX executable tiledb_array_parallel_read_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_iterator_sparse.dir/link.d CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -o tiledb_array_iterator_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 57%] Built target tiledb_array_parallel_consolidate_sparse +[ 56%] Built target tiledb_array_iterator_sparse 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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -o tiledb_array_parallel_consolidate_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_1.cc +[ 57%] Linking CXX executable tiledb_array_parallel_read_mpi_io_dense +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_mem_utils.dir/link.d CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -o test_mem_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -o tiledb_array_parallel_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 57%] Built target test_mem_utils +[ 57%] Built target tiledb_array_parallel_read_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" -[ 57%] Built target tiledb_array_parallel_consolidate_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.d CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -o tiledb_array_parallel_consolidate_sparse ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.d CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -o tiledb_array_parallel_read_mpi_io_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_1.cc [ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_2.cc -[ 57%] Built target tiledb_array_parallel_read_mpi_io_dense +[ 57%] Built target tiledb_array_parallel_consolidate_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -MF CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d -o CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_primitive.cc -[ 58%] Linking CXX executable test_array_schema -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -MF 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CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -o tiledb_array_parallel_read_mpi_io_dense ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 58%] Built target tiledb_array_parallel_read_mpi_io_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" -[ 59%] Linking CXX executable test_codec -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 59%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o +[ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -MF 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/usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 58%] Built target tiledb_array_parallel_consolidate_dense +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 59%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -MF CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d -o CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_3.cc [ 60%] Linking CXX executable tiledb_array_parallel_write_dense_1 -[ 60%] Linking CXX executable tiledb_array_parallel_read_sparse_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.txt --verbose=1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.txt --verbose=1 -[ 60%] Linking CXX executable tiledb_array_parallel_write_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -o tiledb_array_parallel_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -o tiledb_array_parallel_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 60%] Built target tiledb_array_parallel_read_dense_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 [ 60%] Built target tiledb_array_parallel_read_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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" -[ 61%] Linking CXX executable tiledb_array_parallel_write_sparse_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.txt --verbose=1 +[ 60%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_sorted.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema.dir/link.d CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -o test_array_schema ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 60%] Linking CXX executable tiledb_array_parallel_write_dense_2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.txt --verbose=1 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 60%] Built target test_array_schema make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" -[ 61%] Linking CXX executable tiledb_array_parallel_write_sparse_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 61%] Linking CXX executable tiledb_array_primitive -[ 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_1.cc -[ 62%] Linking CXX executable tiledb_array_read_dense_1 +[ 61%] Linking CXX executable tiledb_array_read_dense_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_1.dir/link.txt --verbose=1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_primitive.dir/link.txt --verbose=1 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -MF CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d -o CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_3.cc -[ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_sorted.cc -[ 63%] Linking CXX executable test_codec_filter -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec_filter.dir/link.txt --verbose=1 -[ 63%] Linking CXX executable tiledb_array_read_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_2.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema.dir/link.d CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -o test_array_schema ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 63%] Built target test_array_schema +[ 62%] Linking CXX executable tiledb_array_parallel_write_sparse_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.txt --verbose=1 +[ 62%] Linking CXX executable tiledb_array_parallel_write_sparse_2 +[ 62%] Built target tiledb_array_parallel_read_sparse_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 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -o tiledb_array_parallel_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -[ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_2.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/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 +[ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -MF 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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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_codec_filter.dir/link.d CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -o test_codec_filter ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" -make -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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_2.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" +[ 62%] Linking CXX executable tiledb_array_read_dense_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_2.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 63%] Built target test_codec_filter -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" -[ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o +[ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_1.cc +[ 62%] Linking CXX executable tiledb_array_read_dense_3 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_3.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -o tiledb_array_parallel_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 63%] Linking CXX executable test_codec +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build +[ 63%] Built target tiledb_array_parallel_write_dense_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-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 64%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_2.cc -[ 64%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o [ 65%] Linking CXX executable tiledb_array_read_dense_sorted -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -MF CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_sorted.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_sorted.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -o tiledb_array_parallel_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 65%] Linking CXX executable tiledb_array_read_sparse_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_1.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_read_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 +[ 65%] 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 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 65%] Built target tiledb_array_parallel_write_dense_1 -[ 65%] Linking CXX executable tiledb_array_read_dense_3 -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 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_3.dir/link.txt --verbose=1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" +[ 66%] Linking CXX executable tiledb_array_read_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_2.dir/link.txt --verbose=1 +[ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -MF CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_sorted.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -o tiledb_array_parallel_write_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 65%] Built target tiledb_array_parallel_read_sparse_2 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend +[ 66%] Built target tiledb_array_parallel_write_dense_2 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" +[ 66%] Linking CXX executable tiledb_array_read_sparse_filter_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build -[ 65%] Built target tiledb_array_parallel_write_dense_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/depend +[ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -MF CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d -o CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_1.cc +[ 66%] Linking CXX executable tiledb_array_read_sparse_filter_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_2.dir/link.d CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -o tiledb_array_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_1.dir/link.d CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -o tiledb_array_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_codec.dir/link.d CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -o test_codec ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_primitive.dir/link.d CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -o tiledb_array_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" +[ 66%] Linking CXX executable test_codec_filter +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec_filter.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build +[ 66%] Built target tiledb_array_read_dense_2 +[ 66%] Built target test_codec make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 66%] Built target tiledb_array_read_dense_1 +[ 66%] Built target tiledb_array_primitive +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend +[ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" -[ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -MF CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d -o CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_2.cc -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build -[ 66%] Linking CXX executable tiledb_array_read_sparse_1 -[ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_1.dir/link.txt --verbose=1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -MF CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d -o CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_1.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' -[ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -MF CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_1.cc -[ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT 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/usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 67%] Built target tiledb_array_parallel_write_sparse_1 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" -[ 67%] Linking CXX executable test_filter_api -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_filter_api.dir/link.txt --verbose=1 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc -[ 68%] Linking CXX executable tiledb_array_read_sparse_2 -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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_1.dir/link.d CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -o tiledb_array_read_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_2.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 68%] Built target tiledb_array_read_dense_1 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/depend -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_2.dir/link.d CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -o tiledb_array_read_dense_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o +[ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o +[ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -MF CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_1.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -MF CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_2.cc [ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_sorted.dir/link.d CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -o tiledb_array_read_dense_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_2.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" -[ 68%] Built target tiledb_array_read_dense_2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -o tiledb_array_parallel_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 68%] Built target tiledb_array_read_dense_sorted +[ 68%] Built target tiledb_array_parallel_write_sparse_1 +In file included from /usr/include/c++/15/bits/basic_string.h:51, + from /usr/include/c++/15/string:56: +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++/15/string_view:340:25, + inlined from 'std::string_view get_segment(std::string_view, int)' at /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:819:20: +/usr/include/c++/15/string_view:74:5: warning: 'pos' may be used uninitialized [-Wmaybe-uninitialized] + 74 | if (__pos > __size) + | ^~ +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc: In function 'std::string_view get_segment(std::string_view, int)': +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/src/api/genomicsdb.cc:806:26: note: 'pos' was declared here + 806 | std::string::size_type pos; + | ^~~ +make -f genomicsdb-tiledb/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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" -[ 68%] Linking CXX executable tiledb_array_read_sparse_filter_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -o tiledb_array_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_3.dir/link.d CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -o tiledb_array_read_dense_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build -[ 68%] Linking CXX executable tiledb_array_read_sparse_filter_1 -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_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]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 69%] 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_sorted.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -o tiledb_array_parallel_write_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -[ 70%] Linking CXX executable tiledb_array_read_sparse_sorted make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 69%] Linking CXX executable tiledb_array_read_sparse_sorted +[ 69%] Built target tiledb_array_read_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.txt --verbose=1 -[ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -[ 70%] Built target tiledb_array_parallel_write_sparse_2 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 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_1.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_primitive.dir/link.d CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o -o tiledb_array_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o +[ 70%] Built target tiledb_array_read_dense_3 +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 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 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/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" +[ 70%] Built target test_codec_filter +[ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o +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 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_1.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 70%] Built target tiledb_array_primitive -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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_2.cc -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 70%] Linking CXX executable tiledb_array_update_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_2.dir/link.txt --verbose=1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" +[ 70%] Linking CXX executable tiledb_array_update_dense_1 [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -MF CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_3.cc -[ 70%] Linking CXX executable tiledb_array_update_sparse_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_1.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_dense_3.dir/link.d CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -o tiledb_array_read_dense_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 -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-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_1.dir/link.txt --verbose=1 +[ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -MF CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_4.cc +[ 70%] Linking CXX executable tiledb_array_update_dense_2 [ 70%] Linking CXX executable tiledb_array_update_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_2.dir/link.txt --verbose=1 -[ 70%] Linking CXX executable tiledb_array_update_dense_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_2.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -o tiledb_array_read_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_1.dir/link.txt --verbose=1 -[ 70%] Built target tiledb_array_read_dense_3 -[ 70%] 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/depend +[ 71%] Linking CXX executable tiledb_array_write_dense_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_2.dir/link.txt --verbose=1 +[ 71%] Linking CXX executable tiledb_array_write_dense_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_1.dir/link.txt --verbose=1 +[ 71%] Linking CXX executable tiledb_array_update_sparse_1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_1.dir/link.txt --verbose=1 +[ 71%] Built target tiledb_array_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -o tiledb_array_read_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o +[ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -MF CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d -o CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_catching_errors.cc -[ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -MF CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_4.cc -[ 71%] Built target tiledb_array_read_sparse_1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -o tiledb_array_read_sparse_filter_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 72%] Built target tiledb_array_read_sparse_filter_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/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 -[ 72%] Linking CXX executable tiledb_array_write_dense_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_1.dir/link.txt --verbose=1 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -MF CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d -o CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_clear_delete_move.cc -[ 72%] Linking CXX executable tiledb_array_write_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_2.dir/link.txt --verbose=1 [ 72%] Linking CXX executable tiledb_array_write_dense_sorted +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_sorted.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -o tiledb_array_read_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_filter_api.dir/link.d CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -o test_filter_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 72%] Linking CXX executable tiledb_catching_errors -[ 72%] Linking CXX executable tiledb_array_write_sparse_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_2.dir/link.txt --verbose=1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_catching_errors.dir/link.txt --verbose=1 -[ 73%] Linking CXX executable tiledb_array_write_sparse_3 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_3.dir/link.txt --verbose=1 -[ 74%] Linking CXX executable tiledb_array_write_sparse_1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -o tiledb_array_read_sparse_filter_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -o tiledb_array_read_sparse_filter_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 74%] Built target tiledb_array_read_sparse_filter_1 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend -[ 74%] Linking CXX executable tiledb_array_write_sparse_4 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_4.dir/link.txt --verbose=1 -[ 74%] Built target tiledb_array_read_sparse_filter_2 +[ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -MF CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d -o CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_config.cc +[ 72%] Built target tiledb_array_read_sparse_filter_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend -[ 74%] Built target tiledb_array_read_sparse_2 -[ 74%] Built target test_filter_api -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 72%] Linking CXX executable tiledb_array_write_sparse_4 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_4.dir/link.txt --verbose=1 +[ 73%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -MF CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d -o CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_delete.cc +[ 73%] Linking CXX executable test_filter_api +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_filter_api.dir/link.txt --verbose=1 +[ 74%] Linking CXX executable tiledb_array_write_sparse_3 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_3.dir/link.txt --verbose=1 +[ 74%] Linking CXX executable tiledb_array_write_sparse_2 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -o tiledb_array_read_sparse_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_dense_1.dir/link.d CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -o tiledb_array_update_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 74%] Built target tiledb_array_update_dense_1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend +[ 75%] Linking CXX executable tiledb_array_write_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" +[ 75%] Built target tiledb_array_read_sparse_sorted +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_1.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -MF CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d -o CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_ls.cc +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" +[ 76%] Linking CXX executable tiledb_clear_delete_move make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_clear_delete_move.dir/link.txt --verbose=1 +[ 76%] Linking CXX executable tiledb_config +[ 76%] Linking CXX executable tiledb_catching_errors make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 -[ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -[ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -MF CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d -o CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_config.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_catching_errors.dir/link.txt --verbose=1 +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_config.dir/link.txt --verbose=1 +[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -MF CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d -o CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_ls_workspaces.cc -[ 74%] Built target tiledb_array_read_sparse_sorted +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_update_sparse_2.dir/link.d CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -o tiledb_array_update_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 76%] Built target tiledb_array_update_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend -[ 74%] Built target tiledb_array_update_sparse_2 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' +[ 76%] Built target tiledb_array_update_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/depend -[ 74%] Built target tiledb_array_update_dense_1 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" -[ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o +[ 76%] Built target tiledb_array_update_dense_2 +[ 76%] Built target tiledb_array_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -MF CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d -o CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_ls.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" -[ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -[ 75%] Built target tiledb_array_update_dense_2 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -MF CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d -o CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_delete.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend -[ 75%] Built target tiledb_array_update_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build +[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -MF CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d -o CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_consolidate.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -MF CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d -o CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_create.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -MF CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d -o CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_iterator.cc +[ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -MF CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d -o CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_primitive.cc +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_sorted.dir/link.d CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -o tiledb_array_write_dense_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_1.dir/link.d CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -o tiledb_array_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 77%] Built target tiledb_array_write_dense_sorted +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend +[ 77%] Linking CXX executable test_uri +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_uri.dir/link.txt --verbose=1 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_3.dir/link.d CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -o tiledb_array_write_sparse_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 77%] Built target tiledb_array_write_dense_1 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -MF CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d -o CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_read.cc +[ 77%] Linking CXX executable tiledb_delete +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_delete.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build +[ 77%] Built target tiledb_array_write_sparse_3 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -[ 78%] Linking CXX executable tiledb_clear_delete_move -[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -[ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -[ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -MF CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o.d -o CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_update.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -MF CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d -o CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_create.cc -[ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -MF 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-D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -MF CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d -o CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_primitive.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -MF CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d -o CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_iterator.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -MF CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d -o CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_consolidate.cc -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_1.dir/link.d CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -o tiledb_array_write_dense_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 78%] Built target tiledb_array_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/depend -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_dense_sorted.dir/link.d CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -o tiledb_array_write_dense_sorted ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_catching_errors.dir/link.d CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -o tiledb_catching_errors ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -o tiledb_array_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_2.dir/link.d CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -o tiledb_array_write_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_3.dir/link.d CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -o tiledb_array_write_sparse_3 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 78%] Built target tiledb_array_write_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_4.dir/link.d CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -o tiledb_array_write_sparse_4 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" +[ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -MF CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o.d -o CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_update.cc +[ 78%] Built target tiledb_array_write_sparse_4 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build -[ 78%] Linking CXX executable test_uri make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 78%] Linking CXX executable tiledb_ls_workspaces -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_uri.dir/link.txt --verbose=1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls_workspaces.dir/link.txt --verbose=1 -[ 78%] Linking CXX executable tiledb_metadata_create -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_create.dir/link.txt --verbose=1 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 78%] Linking CXX executable tiledb_config -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_config.dir/link.txt --verbose=1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_2.dir/link.d CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -o tiledb_array_write_sparse_2 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -MF CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d -o CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_write.cc [ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o +[ 78%] Built target tiledb_array_write_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -MF CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o.d -o CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_workspace_group_create.cc -[ 78%] Linking CXX executable tiledb_metadata_update -[ 78%] Linking CXX executable tiledb_metadata_read +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_uri.dir/link.d CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -o test_uri ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 78%] Built target test_uri +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_filter_api.dir/link.d CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -o test_filter_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 78%] Built target test_filter_api +[ 78%] Linking CXX executable tiledb_ls_workspaces +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls_workspaces.dir/link.txt --verbose=1 +[ 78%] Linking CXX executable tiledb_metadata_iterator +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_iterator.dir/link.txt --verbose=1 [ 79%] Linking CXX executable tiledb_ls -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_update.dir/link.txt --verbose=1 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_read.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_clear_delete_move.dir/link.d CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -o tiledb_clear_delete_move ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls.dir/link.txt --verbose=1 -[ 80%] Linking CXX executable tiledb_metadata_consolidate -[ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 80%] Linking CXX executable tiledb_metadata_primitive +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_primitive.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_config.dir/link.d CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -o tiledb_config ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 80%] Built target tiledb_clear_delete_move +[ 80%] Linking CXX executable tiledb_metadata_create +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_create.dir/link.txt --verbose=1 +[ 80%] Built target tiledb_config +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_write_sparse_1.dir/link.d CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -o tiledb_array_write_sparse_1 ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_catching_errors.dir/link.d CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -o tiledb_catching_errors ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 81%] Linking CXX executable tiledb_metadata_consolidate +[ 81%] Built target tiledb_array_write_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_consolidate.dir/link.txt --verbose=1 -[ 80%] Linking CXX executable tiledb_metadata_iterator -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -MF CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d -o CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples/src/tiledb_metadata_write.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_iterator.dir/link.txt --verbose=1 +[ 81%] Built target tiledb_catching_errors In file included from /usr/include/string.h:548, from /usr/include/c++/15/cstring:48, from /usr/include/catch2/internal/catch_stringref.hpp:16, @@ -5091,21 +5144,38 @@ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_array_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 +[ 81%] Linking CXX executable tiledb_metadata_read +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_read.dir/link.txt --verbose=1 +[ 81%] Linking CXX executable tiledb_metadata_update +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_update.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls.dir/link.d CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -o tiledb_ls ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 80%] Built target tiledb_array_write_sparse_4 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_clear_delete_move.dir/link.d CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -o tiledb_clear_delete_move ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +[ 81%] Linking CXX executable tiledb_metadata_write +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_write.dir/link.txt --verbose=1 +[ 81%] Built target tiledb_ls +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls_workspaces.dir/link.d CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -o tiledb_ls_workspaces ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 80%] Built target tiledb_catching_errors -[ 80%] Built target tiledb_clear_delete_move -[ 80%] Built target tiledb_array_write_sparse_1 -[ 80%] Built target tiledb_array_write_dense_sorted -[ 80%] Built target tiledb_array_write_dense_1 -[ 80%] Built target tiledb_array_write_sparse_3 -[ 81%] Linking CXX executable tiledb_metadata_primitive -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_primitive.dir/link.txt --verbose=1 -[ 81%] Linking CXX executable tiledb_delete -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_delete.dir/link.txt --verbose=1 +[ 81%] Built target tiledb_ls_workspaces +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_delete.dir/link.d CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -o tiledb_delete ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_iterator.dir/link.d CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -o tiledb_metadata_iterator ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 82%] Built target tiledb_delete +[ 82%] Built target tiledb_metadata_iterator +[ 82%] Linking CXX executable tiledb_workspace_group_create +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_workspace_group_create.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_primitive.dir/link.d CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -o tiledb_metadata_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 82%] Built target tiledb_metadata_primitive +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_create.dir/link.d CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -o tiledb_metadata_create ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_consolidate.dir/link.d CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -o tiledb_metadata_consolidate ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 82%] Built target tiledb_metadata_create +[ 82%] Built target tiledb_metadata_consolidate +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_read.dir/link.d CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -o tiledb_metadata_read ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 82%] Built target tiledb_metadata_read In file included from /usr/include/x86_64-linux-gnu/c++/15/bits/c++allocator.h:33, from /usr/include/c++/15/bits/allocator.h:46, from /usr/include/c++/15/string:45, @@ -5130,43 +5200,9 @@ /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test/include/benchmark/tiledb_benchmark.h:483:13: note: declared here 483 | std::string readable_size(size_t size, bool human_readable_sizes) { | ^~~~~~~~~~~~~ -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_uri.dir/link.d CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -o test_uri ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 81%] Built target test_uri -[ 82%] Linking CXX executable tiledb_workspace_group_create -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_workspace_group_create.dir/link.txt --verbose=1 -[ 82%] Linking CXX executable tiledb_metadata_write -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_write.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls_workspaces.dir/link.d CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -o tiledb_ls_workspaces ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_config.dir/link.d CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -o tiledb_config ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_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-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_update.dir/link.d CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -o tiledb_metadata_update ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 82%] Built target tiledb_ls_workspaces -[ 82%] Built target tiledb_config -[ 82%] Built target tiledb_metadata_create [ 82%] Built target tiledb_metadata_update -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_delete.dir/link.d CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -o tiledb_delete ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 82%] Built target tiledb_delete -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_ls.dir/link.d CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -o tiledb_ls ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_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 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_consolidate.dir/link.d CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -o tiledb_metadata_consolidate ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 82%] Built target tiledb_ls -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_read.dir/link.d CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -o tiledb_metadata_read ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 82%] Built target tiledb_metadata_iterator -[ 82%] Built target tiledb_metadata_consolidate -[ 82%] Built target tiledb_metadata_read -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_primitive.dir/link.d CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -o tiledb_metadata_primitive ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 82%] Built target tiledb_metadata_primitive /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/tiledb_metadata_write.dir/link.d CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -o tiledb_metadata_write ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 82%] Built target tiledb_metadata_write @@ -5178,37 +5214,37 @@ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_iterator.dir/link.d CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -o test_array_iterator ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 83%] Built target test_array_iterator -[ 83%] Linking CXX executable test_array_schema_api -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema_api.dir/link.txt --verbose=1 +[ 83%] Linking CXX executable test_storage_buffer +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_storage_buffer.dir/link.txt --verbose=1 [ 84%] Linking CXX executable test_sparse_array_benchmark cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sparse_array_benchmark.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema_api.dir/link.d CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -o test_array_schema_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 84%] Built target test_array_schema_api +[ 84%] Linking CXX executable test_array_schema_api +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema_api.dir/link.txt --verbose=1 [ 85%] Linking CXX executable test_dense_array_api +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_storage_buffer.dir/link.d CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -o test_storage_buffer ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_dense_array_api.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_sparse_array_benchmark.dir/link.d CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -o test_sparse_array_benchmark ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 85%] Linking CXX executable test_storage_buffer -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_storage_buffer.dir/link.txt --verbose=1 +[ 85%] Built target test_storage_buffer [ 85%] Built target test_sparse_array_benchmark -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_dense_array_api.dir/link.d CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -o test_dense_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 85%] Built target test_dense_array_api [ 85%] Linking CXX executable test_utils cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_utils.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_storage_buffer.dir/link.d CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o -o test_storage_buffer ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_array_schema_api.dir/link.d CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -o test_array_schema_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 85%] Built target test_storage_buffer [ 86%] Linking CXX executable test_tiledb_utils cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tiledb_utils.dir/link.txt --verbose=1 +[ 86%] Built target test_array_schema_api +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_dense_array_api.dir/link.d CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -o test_dense_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target test_utils /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_tiledb_utils.dir/link.d CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -o test_tiledb_utils ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 86%] Built target test_tiledb_utils make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 86%] Built target test_tiledb_utils [ 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 @@ -5217,22 +5253,17 @@ make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" make[4]: Leaving directory 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CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsetsct_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -Wl,-rpath,/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core: /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_symlink_library libgenomicsdb.so.1.5.4 libgenomicsdb.so.1 libgenomicsdb.so make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 86%] Built target tiledbgenomicsdb @@ -5242,16 +5273,21 @@ make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 87%] 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 +[ 86%] 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_GenomicsDBQuery.cc.o [ 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_jni_init.cc.o -[ 87%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQuery.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc +[ 87%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_jni_init.cc +[ 87%] Linking CXX executable test_posixfs +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_posixfs.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_posixfs.dir/link.d CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -o test_posixfs ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 87%] Built target test_posixfs In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, @@ -5315,8 +5351,6 @@ /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -[ 87%] Linking CXX executable test_expressions -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_expressions.dir/link.txt --verbose=1 /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniInitializeGenomicsDBImporterObject(JNIEnv*, jobject, jstring, jint)': /build/reproducible-path/genomicsdb-1.5.5/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:102:3: warning: control reaches end of non-void function [-Wreturn-type] 102 | } @@ -5331,145 +5365,148 @@ | ^ [ 87%] Linking CXX executable test_sparse_array_api cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sparse_array_api.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_expressions.dir/link.d CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -o test_expressions ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 87%] Built target test_expressions /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_sparse_array_api.dir/link.d CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -o test_sparse_array_api ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 87%] Built target test_sparse_array_api +[ 87%] Linking CXX executable test_expressions +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_expressions.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now -Wl,--dependency-file=CMakeFiles/test_expressions.dir/link.d CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -o test_expressions ../core/libgenomicsdb-tiledb.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libuuid.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libcurl.so -ldl /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 87%] Built target test_expressions _mapping.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o /usr/bin/ranlib libgenomicsdb.a make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 87%] Built target genomicsdb 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 -make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/depend -make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" +make -f 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-1.5.5/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" -make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" -make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" -make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend +make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/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 -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/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-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" +make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend +make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" +make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 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-DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o -MF CMakeFiles/api_tests.dir/src/ctest_main.cc.o.d -o CMakeFiles/api_tests.dir/src/ctest_main.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/ctest_main.cc -[ 95%] Building CXX object example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o +[ 90%] Building CXX object 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-D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -MF CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o.d -o CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc +[ 91%] Building CXX object tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o +[ 91%] Building CXX object tools/CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o +[ 91%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o +[ 91%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED 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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-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o -MF CMakeFiles/ctests.dir/src/test_logger.cc.o.d -o CMakeFiles/ctests.dir/src/test_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_logger.cc +[ 93%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o +[ 93%] Building CXX object tools/CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o +[ 91%] Building CXX object tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o +[ 94%] Building CXX object tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result 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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-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -MF CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o.d -o CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_htslib_plugin.cc -cd /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb 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-I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -MF CMakeFiles/ctests.dir/src/test_mem_utils.cc.o.d -o CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_mem_utils.cc +[ 94%] Building CXX object example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o 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-I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/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-1.5.5/tools/src/gt_mpi_gather.cc +cd /build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/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-1.5.5/tools/src/vcf_histogram.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o -MF CMakeFiles/ctests.dir/src/test_bgen.cc.o.d -o CMakeFiles/ctests.dir/src/test_bgen.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_bgen.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o -MF CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d -o CMakeFiles/ctests.dir/src/test_query_variants.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_query_variants.cc +[ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/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-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.5/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o -MF CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o.d -o CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o -MF CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o.d -o CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_gt_remapper.cc +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o -MF CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d -o CMakeFiles/ctests.dir/src/test_query_variants.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_query_variants.cc +[ 95%] Building CXX object example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -MF CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o.d -o CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.5/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -MF CMakeFiles/ctests.dir/src/test_mem_utils.cc.o.d -o CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_mem_utils.cc -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core/include/c_api -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -MF CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/tools/include/vcfdiff.h:31, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:25: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5482,37 +5519,15 @@ from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/tools/include/vcfdiff.h:26: -/usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here - 129 | struct _GLIBCXX17_DEPRECATED iterator - | ^~~~~~~~ -In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc:26: -/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] - 290 | : std::iterator - | ^~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, - from /usr/include/c++/15/string:49, - 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-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:25: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:30: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5524,8 +5539,7 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_bcf_generator.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ @@ -5533,7 +5547,9 @@ from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:30: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:29: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5545,24 +5561,10 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/gt_mpi_gather.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In constructor 'VCFDiffFile::VCFDiffFile(const std::string&, const std::string&)': -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:83:41: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] - 83 | std::string field_name = std::move(std::string(bcf_hdr_int2id(m_hdr, BCF_DT_ID, i))); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:83:41: note: remove 'std::move' call -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In member function 'void VCFDiffFile::compare_line(const bcf_hdr_t*, bcf1_t*)': -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] - 591 | auto gold_ID_set = std::move(get_ID_set(gold_line)); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: note: remove 'std::move' call -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] - 592 | auto test_ID_set = std::move(get_ID_set(m_line)); - | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ -/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, @@ -5583,9 +5585,9 @@ | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_columnar_gvcf_iterator.cc:31: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_multid_vector.cc:27: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5595,15 +5597,16 @@ 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-1.5.5/src/test/cpp/src/test_columnar_gvcf_iterator.cc:29: + from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_multid_vector.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_multid_vector.cc:27: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5613,7 +5616,7 @@ 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-1.5.5/src/test/cpp/src/test_multid_vector.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_non_diploid_mapper.cc:24: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ @@ -5621,33 +5624,27 @@ from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:26: + from /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/src/test_columnar_gvcf_iterator.cc:31: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ -In file included from /usr/include/c++/15/bits/stl_algobase.h:65, - from /usr/include/c++/15/bits/hashtable_policy.h:36, - from /usr/include/c++/15/bits/hashtable.h:37, - from /usr/include/c++/15/bits/unordered_map.h:33, - from /usr/include/c++/15/unordered_map:43, - from /usr/include/c++/15/functional:65, - from /usr/include/spdlog/common.h:13, - from /usr/include/spdlog/spdlog.h:12, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/genomicsdb_logger.h:41, - from /build/reproducible-path/genomicsdb-1.5.5/tools/include/common.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:25: +In file included from /usr/include/c++/15/bits/stl_iterator_base_funcs.h:68, + from /usr/include/c++/15/string:49, + 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-1.5.5/src/test/cpp/src/test_columnar_gvcf_iterator.cc:29: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf_histogram.cc:24: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_field_data.h:29, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/query_operations/variant_operations.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/tools/include/vcfdiff.h:31, + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:25: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5660,8 +5657,7 @@ from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/vcf2binary.h:26, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf_histogram.cc:23: + from /build/reproducible-path/genomicsdb-1.5.5/tools/include/vcfdiff.h:26: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ @@ -5671,7 +5667,8 @@ from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:29: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/genomicsdb_importer.h:25, + from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:26: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5683,7 +5680,8 @@ from /usr/include/c++/15/bits/ostream.h:43, from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, - from /build/reproducible-path/genomicsdb-1.5.5/tools/src/consolidate_genomicsdb_array.cc:26: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, + from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:25: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ @@ -5693,8 +5691,31 @@ from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, - from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/genomicsdb_importer.h:25, - from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:26: + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:26: +/build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] + 290 | : std::iterator + | ^~~~~~~~ +In file included from /usr/include/c++/15/bits/stl_algobase.h:65, + from /usr/include/c++/15/bits/hashtable_policy.h:36, + from /usr/include/c++/15/bits/hashtable.h:37, + from /usr/include/c++/15/bits/unordered_map.h:33, + from /usr/include/c++/15/unordered_map:43, + from /usr/include/c++/15/functional:65, + from /usr/include/spdlog/common.h:13, + from /usr/include/spdlog/spdlog.h:12, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/genomicsdb_logger.h:41, + from /build/reproducible-path/genomicsdb-1.5.5/tools/include/common.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:25: +/usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here + 129 | struct _GLIBCXX17_DEPRECATED iterator + | ^~~~~~~~ +In file included from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_cell.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/query_variants.h:28, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/load_operators.h:27, + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/loader/tiledb_loader.h:30, + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf_histogram.cc:24: /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ @@ -5707,71 +5728,86 @@ from /usr/include/c++/15/ostream:42, from /usr/include/c++/15/iostream:43, from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/utils/headers.h:32, - from /build/reproducible-path/genomicsdb-1.5.5/example/src/test_genomicsdb_importer.cc:25: + from /build/reproducible-path/genomicsdb-1.5.5/src/main/cpp/include/vcf/vcf2binary.h:26, + from /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf_histogram.cc:23: /usr/include/c++/15/bits/stl_iterator_base_types.h:129:34: note: declared here 129 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In constructor 'VCFDiffFile::VCFDiffFile(const std::string&, const std::string&)': +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:83:41: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] + 83 | std::string field_name = std::move(std::string(bcf_hdr_int2id(m_hdr, BCF_DT_ID, i))); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:83:41: note: remove 'std::move' call +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc: In member function 'void VCFDiffFile::compare_line(const bcf_hdr_t*, bcf1_t*)': +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] + 591 | auto gold_ID_set = std::move(get_ID_set(gold_line)); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:591:33: note: remove 'std::move' call +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] + 592 | auto test_ID_set = std::move(get_ID_set(m_line)); + | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ +/build/reproducible-path/genomicsdb-1.5.5/tools/src/vcfdiff.cc:592:33: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc: In function 'int main(int, char**)': /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:165:45: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 165 | auto loader_json_config_file = std::move(std::string(argv[optind])); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.5/tools/src/vcf2genomicsdb.cc:165:45: note: remove 'std::move' call +[ 95%] Linking CXX shared library libgenomicsdbjni.so +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdbjni.dir/link.txt --verbose=1 +/usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,--dependency-file=CMakeFiles/genomicsdbjni.dir/link.d -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -shared -Wl,-soname,libgenomicsdbjni.so -o libgenomicsdbjni.so CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib libgenomicsdb.so.1.5.4 ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 95%] Built target genomicsdbjni [ 96%] Linking CXX executable test_genomicsdb_bcf_generator cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_bcf_generator.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -o test_genomicsdb_bcf_generator -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 96%] Linking CXX shared library libgenomicsdbjni.so [ 96%] Built target test_genomicsdb_bcf_generator -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdbjni.dir/link.txt --verbose=1 [ 96%] Linking CXX executable gt_mpi_gather cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/gt_mpi_gather.dir/link.txt --verbose=1 -/usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,--dependency-file=CMakeFiles/genomicsdbjni.dir/link.d -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -shared -Wl,-soname,libgenomicsdbjni.so -o libgenomicsdbjni.so CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/x86_64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib libgenomicsdb.so.1.5.4 ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 96%] Built target genomicsdbjni /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/gt_mpi_gather.dir/link.d CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o -o gt_mpi_gather -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 96%] Built target gt_mpi_gather [ 96%] Linking CXX executable create_genomicsdb_workspace cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/create_genomicsdb_workspace.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/create_genomicsdb_workspace.dir/link.d CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -o create_genomicsdb_workspace -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so 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../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 97%] Built target vcfdiff -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_demo.dir/link.d CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o -o test_genomicsdb_demo -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/create_genomicsdb_workspace.dir/link.d CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -o create_genomicsdb_workspace -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 97%] Built target test_genomicsdb_demo -[ 97%] Linking CXX executable api_tests -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/api_tests.dir/link.txt --verbose=1 -[ 97%] Linking CXX executable vcf_histogram -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf_histogram.dir/link.txt --verbose=1 +[ 97%] Built target create_genomicsdb_workspace [ 98%] Linking CXX executable consolidate_genomicsdb_array cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/consolidate_genomicsdb_array.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/api_tests.dir/link.d CMakeFiles/api_tests.dir/src/ctest_main.cc.o CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -o api_tests -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E tar xzf /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/../inputs/test.tgz +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcfdiff.dir/link.d CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o -o vcfdiff -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 98%] Built target api_tests -[ 99%] Linking CXX executable vcf2genomicsdb -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb.dir/link.txt --verbose=1 +[ 98%] Built target vcfdiff +[ 98%] Linking CXX executable vcf_histogram +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf_histogram.dir/link.txt --verbose=1 +[ 98%] Linking CXX executable test_genomicsdb_demo +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_demo.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/consolidate_genomicsdb_array.dir/link.d CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -o consolidate_genomicsdb_array -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 98%] Built target consolidate_genomicsdb_array /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf_histogram.dir/link.d CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o -o vcf_histogram -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 99%] Built target vcf_histogram -[ 99%] Linking CXX executable test_genomicsdb_importer +[ 98%] Built target vcf_histogram +[ 98%] Linking CXX executable test_genomicsdb_importer cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_importer.dir/link.txt --verbose=1 -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/consolidate_genomicsdb_array.dir/link.d CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -o consolidate_genomicsdb_array -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_demo.dir/link.d CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o -o test_genomicsdb_demo -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 99%] Built target consolidate_genomicsdb_array +[ 98%] Built target test_genomicsdb_demo +[ 99%] Linking CXX executable vcf2genomicsdb +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb.dir/link.txt --verbose=1 +[ 99%] Linking CXX executable api_tests +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/api_tests.dir/link.txt --verbose=1 +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_importer.dir/link.d CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -o test_genomicsdb_importer -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 99%] Built target test_genomicsdb_importer /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf2genomicsdb.dir/link.d CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -o vcf2genomicsdb -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' [ 99%] Built target vcf2genomicsdb -/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_importer.dir/link.d CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -o test_genomicsdb_importer -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +/usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/api_tests.dir/link.d CMakeFiles/api_tests.dir/src/ctest_main.cc.o CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -o api_tests -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/libCatch2.a /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libmuparserx.so /usr/lib/x86_64-linux-gnu/libbz2.so /usr/lib/x86_64-linux-gnu/liblzma.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E tar xzf /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp/../inputs/test.tgz make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 99%] Built target test_genomicsdb_importer +[ 99%] Built target api_tests [100%] Linking CXX executable ctests cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/ctests.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.5=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/ctests.dir/link.d CMakeFiles/ctests.dir/src/ctest_main.cc.o CMakeFiles/ctests.dir/src/test_config.cc.o CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o CMakeFiles/ctests.dir/src/test_multid_vector.cc.o CMakeFiles/ctests.dir/src/test_pb.cc.o CMakeFiles/ctests.dir/src/test_logger.cc.o CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o CMakeFiles/ctests.dir/src/test_bgen.cc.o CMakeFiles/ctests.dir/src/test_query_variants.cc.o CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -o ctests -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib:/usr/lib/x86_64-linux-gnu/openmpi/lib ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/x86_64-linux-gnu/librt.a /usr/lib/x86_64-linux-gnu/libprotobuf.so /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/x86_64-linux-gnu/libcurl.so /usr/lib/x86_64-linux-gnu/libssl.so /usr/lib/x86_64-linux-gnu/libcrypto.so /usr/lib/x86_64-linux-gnu/libuuid.so -ldl /usr/lib/x86_64-linux-gnu/libfmt.so.10.1.0 /usr/lib/libCatch2.a /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 @@ -5968,18 +6004,18 @@ [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ -[INFO] Total time: 7.659 s -[INFO] Finished at: 2025-10-30T22:43:09-12:00 +[INFO] Total time: 14.293 s +[INFO] Finished at: 2026-12-04T07:29:14+14:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_build -O--buildsystem=cmake debian/rules override_dh_auto_test-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_test -a || true - cd obj-x86_64-linux-gnu && make -j40 test ARGS\+=--verbose ARGS\+=-j40 + cd obj-x86_64-linux-gnu && make -j42 test ARGS\+=--verbose ARGS\+=-j42 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Running tests... -/usr/bin/ctest --force-new-ctest-process --verbose -j40 +/usr/bin/ctest --force-new-ctest-process --verbose -j42 UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu @@ -6122,7 +6158,7 @@ 22: Test command: /build/reproducible-path/genomicsdb-1.5.5/tests/test_tools.sh "/build/reproducible-path/genomicsdb-1.5.5/tests/inputs/vcfs" "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools" "1" 22: Working Directory: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools 22: Test timeout computed to be: 10000000 -1: Randomness seeded to: 2429247174 +1: Randomness seeded to: 577409892 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. @@ -6289,21 +6325,21 @@ 2: Usage: test_print_array_schema /path/to/TileDBArray 3: No arguments specified 3: Usage: test_print_book_keeping /path/to/TileDBArray/ -4: Randomness seeded to: 3573239133 +4: Randomness seeded to: 2194901903 4: =============================================================================== 4: test cases: 1 | 1 passed 4: assertions: - none - 4: -6: Randomness seeded to: 784891193 +6: Randomness seeded to: 4204533609 6: =============================================================================== 6: All tests passed (335 assertions in 13 test cases) 6: -9: Randomness seeded to: 65439533 -9: [TileDB::utils] Error: (set_working_dir) Failed to set_working_dir as /tmp/TileDBTestFqX05S/WORKSPACE.nonexistent does not exist -9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestSyCVWs/WORKSPACE errno=2(No such file or directory) -9: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=/tmp/TileDBTestSyCVWs/WORKSPACE errno=2(No such file or directory) -9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestqJVbDE/WORKSPACE errno=2(No such file or directory) -10: Randomness seeded to: 4021317020 +9: Randomness seeded to: 3040064286 +9: [TileDB::utils] Error: (set_working_dir) Failed to set_working_dir as /tmp/TileDBTestTx8i7e/WORKSPACE.nonexistent does not exist +9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTest3bNer2/WORKSPACE errno=2(No such file or directory) +9: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=/tmp/TileDBTest3bNer2/WORKSPACE errno=2(No such file or directory) +9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTesthh0QQm/WORKSPACE errno=2(No such file or directory) +10: Randomness seeded to: 2475047018 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 @@ -6314,7 +6350,7 @@ 10: =============================================================================== 10: All tests passed (31 assertions in 5 test cases) 10: -11: Randomness seeded to: 1400445467 +11: Randomness seeded to: 2042493089 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. @@ -6346,7 +6382,7 @@ 11: =============================================================================== 11: All tests passed (192 assertions in 2 test cases) 11: -12: Randomness seeded to: 2439974207 +12: Randomness seeded to: 10613773 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: @@ -6392,13 +6428,22 @@ 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: 2805146446 -14: Thu Oct 30 22:43:10 2025 Memory stats Tracking memory usage START size=6MB resident=4MB share=3MB text=496KB lib=0 data=536KB dt=0 -15: Randomness seeded to: 2549943578 +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: +13: Randomness seeded to: 4028353670 +13: =============================================================================== +13: All tests passed (317 assertions in 3 test cases) +13: +14: Randomness seeded to: 2493503892 +14: Fri Dec 4 07:29:17 2026 Memory stats Tracking memory usage START size=6MB resident=4MB share=3MB text=496KB lib=0 data=536KB dt=0 +15: Randomness seeded to: 169881438 15: =============================================================================== 15: All tests passed (131 assertions in 2 test cases) 15: -16: Randomness seeded to: 807818648 +16: Randomness seeded to: 1447451594 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 @@ -6412,18 +6457,18 @@ 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: 1119110582 -17: [TileDB::FileSystem] Error: (create_dir) Cannot create directory; Directory already exists path=/tmp/TileDBTestfXpQWN/test_posixfs_dirdir +17: Randomness seeded to: 2930959323 +17: [TileDB::FileSystem] Error: (create_dir) Cannot create directory; Directory already exists path=/tmp/TileDBTestyyJOvE/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/TileDBTestfXpQWN/test_posixfs_dirdir errno=21(Is a directory) -17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTestfXpQWN/test_posixfs_dirdir errno=21(Is a directory) +17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTestyyJOvE/test_posixfs_dirdir errno=21(Is a directory) +17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTestyyJOvE/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: 957455563 -18: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTestwMBXQx/test-file -18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/tmp/TileDBTestwMBXQx/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/TileDBTestwMBXQx/test-file -18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestwMBXQx/test-file +18: Randomness seeded to: 2572165586 +18: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTestYq1CVe/test-file +18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/tmp/TileDBTestYq1CVe/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/TileDBTestYq1CVe/test-file +18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestYq1CVe/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) @@ -6438,72 +6483,67 @@ 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/TileDBTestZLKnCv/compressed_foo - 1/22 Test #1: test_array_schema ................ Passed 0.04 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 0.01 sec -12: [TileDB::Expression] Error: (init) Parser SetExpr error for expression 'resolve(a1) &= ""': Too few parameters passed to function "resolve". -12: [TileDB::Expression] Error: (init) Expression parsing for dense arrays not yet implemented -12: =============================================================================== -12: All tests passed (3334 assertions in 83 test cases) -12: - 9/22 Test #12: test_expressions ................. Passed 0.02 sec +18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestWbcUOk/compressed_foo 19: Example 1: Running ./tiledb_workspace_group_create... -21: Randomness seeded to: 48342249 +19: Example 1: Done running ./tiledb_workspace_group_create + 1/22 Test #1: test_array_schema ................ Passed 0.35 sec + 2/22 Test #2: test_print_array_schema .......... Passed 0.39 sec + 3/22 Test #3: test_print_book_keeping .......... Passed 0.38 sec + 4/22 Test #4: test_sparse_array_benchmark ...... Passed 0.38 sec + 5/22 Test #6: test_array_schema_api ............ Passed 0.37 sec + 6/22 Test #10: test_codec ....................... Passed 0.29 sec + 7/22 Test #11: test_codec_filter ................ Passed 0.29 sec + 8/22 Test #12: test_expressions ................. Passed 0.28 sec + 9/22 Test #13: test_filter_api .................. Passed 0.24 sec +10/22 Test #15: test_uri ......................... Passed 0.23 sec +19: Example 2: Running ./tiledb_ls_workspaces... +19: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=&& errno=2(No such file or directory) +19: Example 2: Done running ./tiledb_ls_workspaces +19: Example 3: Running ./tiledb_array_create_dense... +21: Randomness seeded to: 2662193243 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container +21: 07:29:17.631 ERROR NativeGenomicsDB - pid=533318 tid=533318 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container +21: 07:29:17.631 ERROR NativeGenomicsDB - pid=533318 tid=533318 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container +21: 07:29:17.631 ERROR NativeGenomicsDB - pid=533318 tid=533318 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws +21: 07:29:17.631 ERROR NativeGenomicsDB - pid=533318 tid=533318 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-ws +21: 07:29:17.631 ERROR NativeGenomicsDB - pid=533318 tid=533318 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-ws 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported 21: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-ws errno=2(No such file or directory) 21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 22:43:10.720 ERROR NativeGenomicsDB - pid=60929 tid=60929 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws[TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-ws errno=2(No such file or directory) +21: 07:29:17.631 ERROR NativeGenomicsDB - pid=533318 tid=533318 [TileDB::StorageManagerConfig] Error: HDFS initialization failed for home=az://non-existent-container/ws[TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-ws errno=2(No such file or directory) 21: [TileDB::FileSystem] Error: TileDB built with HDFS support disabled.: Protocol not supported -19: Example 1: Done running ./tiledb_workspace_group_create -19: Example 2: Running ./tiledb_ls_workspaces... -19: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=&& errno=2(No such file or directory) -19: Example 2: Done running ./tiledb_ls_workspaces -19: Example 3: Running ./tiledb_array_create_dense... -13: Randomness seeded to: 2613316247 -13: =============================================================================== -13: All tests passed (317 assertions in 3 test cases) -13: -10/22 Test #13: test_filter_api .................. Passed 0.05 sec 19: Example 3: Done running ./tiledb_array_create_dense 19: Example 4: Running ./tiledb_array_create_sparse... -19: Example 4: Done running ./tiledb_array_create_sparse -19: Example 5: Running ./tiledb_array_primitive... -20: 22:43:11.028 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 22:43:11.028 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 22:43:11.028 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -20: Randomness seeded to: 1755063630 -20: 0.126 s: Check loader configuration with json file -20: 22:43:11.029 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 22:43:11.029 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 22:43:11.029 DEBUG NativeGenomicsDB - pid=60927 tid=60927 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) +20: 07:29:17.759 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 07:29:17.759 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 07:29:17.858 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +17: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=non-existent-dir errno=2(No such file or directory) +16: =============================================================================== +16: All tests passed (86 assertions in 6 test cases) +16: +20: Randomness seeded to: 2612958000 +20: 0.184 s: Check loader configuration with json file +20: 07:29:17.859 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 07:29:17.859 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 07:29:17.859 DEBUG NativeGenomicsDB - pid=533300 tid=533300 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: 22:43:11.030 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 22:43:11.030 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 22:43:11.030 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +11/22 Test #16: test_utils ....................... Passed 0.53 sec +20: 07:29:17.860 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 07:29:17.860 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 07:29:17.861 DEBUG NativeGenomicsDB - pid=533300 tid=533300 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: 22:43:11.031 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 22:43:11.031 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 22:43:11.031 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +20: 07:29:17.861 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 07:29:17.861 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 07:29:17.862 DEBUG NativeGenomicsDB - pid=533300 tid=533300 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 @@ -6521,12 +6561,12 @@ 20: 0.000 s: multid_vector 2D_tuple_test 20: 0.000 s: pb_query_config_test 20: 0.001 s: pb_vid_mapping_test -20: 22:43:11.033 INFO NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:11.033 INFO NativeGenomicsDB - pid=60927 tid=60927 This is a test -20: 22:43:11.033 WARN NativeGenomicsDB - pid=60927 tid=60927 This is a test -20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 This is a test -20: 22:43:11.033 DEBUG NativeGenomicsDB - pid=60927 tid=60927 This is a test +20: 07:29:17.865 INFO NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:17.865 INFO NativeGenomicsDB - pid=533300 tid=533300 This is a test +20: 07:29:17.865 WARN NativeGenomicsDB - pid=533300 tid=533300 This is a test +20: 07:29:17.865 ERROR NativeGenomicsDB - pid=533300 tid=533300 This is a test +20: 07:29:17.865 DEBUG NativeGenomicsDB - pid=533300 tid=533300 This is a test 20: This is a test 20: This is a test 20: This is a test @@ -6534,64 +6574,73 @@ 20: This is a once_only test 20: Trying format Hello1 Hello2 20: 0.000 s: test logger -20: 22:43:11.033 INFO NativeGenomicsDB - pid=60927 tid=60927 i=1 str=This is a test -20: 22:43:11.033 WARN NativeGenomicsDB - pid=60927 tid=60927 i=2 str=This is a test -20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 i=3 str=This is a test -20: 22:43:11.033 DEBUG NativeGenomicsDB - pid=60927 tid=60927 i=4 str=This is a test -20: 22:43:11.033 INFO NativeGenomicsDB - pid=60927 tid=60927 i=6 str=This is a once_only test -20: 22:43:11.033 WARN NativeGenomicsDB - pid=60927 tid=60927 i=7 str=This is a once_only test +20: 07:29:17.866 INFO NativeGenomicsDB - pid=533300 tid=533300 i=1 str=This is a test +20: 07:29:17.866 WARN NativeGenomicsDB - pid=533300 tid=533300 i=2 str=This is a test +20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 i=3 str=This is a test +20: 07:29:17.866 DEBUG NativeGenomicsDB - pid=533300 tid=533300 i=4 str=This is a test +20: 07:29:17.866 INFO NativeGenomicsDB - pid=533300 tid=533300 i=6 str=This is a once_only test +20: 07:29:17.866 WARN NativeGenomicsDB - pid=533300 tid=533300 i=7 str=This is a once_only test 20: 0.000 s: test logger format -20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 i=1 str=This is a test -20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Test Exception -20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Test Exception -20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Test Exception -20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Native Stack Trace: -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x5617ab96afb2] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa4be6) [0x5617ab95bbe6] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x5617abb0f51c] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x5617abb10018] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x5617abb1047a] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x5617abae3653] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x5617abae393c] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x5617ab93159e] -20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7fdacca33ca8] -20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Test Exception -20: 22:43:11.033 ERROR NativeGenomicsDB - pid=60927 tid=60927 Native Stack Trace: -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x5617ab96afb2] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa4c09) [0x5617ab95bc09] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x5617abb0f51c] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x5617abb10018] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x5617abb1047a] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x5617abae3653] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x5617abae393c] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x5617ab93159e] -20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7fdacca33ca8] -20: 0.000 s: test logger exceptions -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x5617ab96afb2] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa7d3a) [0x5617ab95ed3a] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x5617abb0f51c] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x5617abb10018] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x5617abb1047a] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x5617abae3653] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x5617abae393c] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x5617ab93159e] -20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7fdacca33ca8] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x5617ab96afb2] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa7d60) [0x5617ab95ed60] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x5617abb0f51c] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x5617abb10018] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x5617abb1047a] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x5617abae3653] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x5617abae393c] -20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x5617ab93159e] -20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7fdacca33ca8] +20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 i=1 str=This is a test +20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 Test Exception +20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 Test Exception +20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 Test Exception +20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 Native Stack Trace: +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x55a81d0a5fb2] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa4be6) [0x55a81d096be6] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x55a81d24a51c] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x55a81d24b018] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x55a81d24b47a] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x55a81d21e653] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x55a81d21e93c] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x55a81d06c59e] +20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f8f03033ca8] +20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 Test Exception +20: 07:29:17.866 ERROR NativeGenomicsDB - pid=533300 tid=533300 Native Stack Trace: +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x55a81d0a5fb2] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa4c09) [0x55a81d096c09] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x55a81d24a51c] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x55a81d24b018] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x55a81d24b47a] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x55a81d21e653] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x55a81d21e93c] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x55a81d06c59e] +20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f8f03033ca8] +20: 0.001 s: test logger exceptions +19: Example 4: Done running ./tiledb_array_create_sparse +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x55a81d0a5fb2] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa7d3a) [0x55a81d099d3a] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x55a81d24a51c] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x55a81d24b018] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x55a81d24b47a] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x55a81d21e653] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x55a81d21e93c] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x55a81d06c59e] +20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f8f03033ca8] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xb3fb2) [0x55a81d0a5fb2] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0xa7d60) [0x55a81d099d60] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25851c) [0x55a81d24a51c] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x259018) [0x55a81d24b018] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x25947a) [0x55a81d24b47a] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c653) [0x55a81d21e653] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x22c93c) [0x55a81d21e93c] +20: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/ctests(+0x7a59e) [0x55a81d06c59e] +20: /lib/x86_64-linux-gnu/libc.so.6(+0x29ca8) [0x7f8f03033ca8] 20: This is a test -20: 0.000 s: test explicit logger -20: 22:43:11.034 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 22:43:11.034 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 22:43:11.034 DEBUG NativeGenomicsDB - pid=60927 tid=60927 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) -17: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=non-existent-dir errno=2(No such file or directory) +20: 0.001 s: test explicit logger +20: 07:29:17.868 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 07:29:17.868 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 07:29:17.868 DEBUG NativeGenomicsDB - pid=533300 tid=533300 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... +21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. +21: 0.381 s: utils +21: 0.000 s: api empty_args +20: 0.034 s: gvcf iterator +20: 07:29:17.902 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 07:29:17.902 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 07:29:17.903 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +9: 7e820c3ee657b1a27a56a7be9d202a7a7e820c3ee657b1a27a56a7be9d202a7a[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestmjMJqm/test_file +9: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestmjMJqm/test_file 19: Array name: my_workspace/dense_arrays/my_array_A 19: Attributes: a1 a2 a3 19: The array is dense @@ -6599,86 +6648,59 @@ 19: Attributes: a1 a2 a3 19: The array is sparse 19: Example 5: Done running ./tiledb_array_primitive -20: 0.070 s: gvcf iterator -20: 22:43:11.104 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 22:43:11.104 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 22:43:11.104 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 19: Example 6: Running ./tiledb_array_write_dense_1... -21: [TileDB::StorageManagerConfig] Error: TileDB built with HDFS support disabled.: Protocol not supported. -21: 0.586 s: utils -21: 0.000 s: api empty_args -16: =============================================================================== -16: All tests passed (86 assertions in 6 test cases) -16: -11/22 Test #16: test_utils ....................... Passed 0.61 sec -20: 0.209 s: columnar_gvcf_iterator_test -21: 0.019 s: api query_variants direct DP -21: 0.007 s: api query_variants direct DP with huge row range -21: 0.007 s: api query_variants direct DP with huge disjoint row ranges -21: 0.011 s: api query_variants direct DP with range composed of multiple points -21: 0.011 s: api query_variants direct DP with range composed of overlapping ranges -21: 22:43:11.367 ERROR NativeGenomicsDB - pid=60929 tid=60929 Query interval 0:-100-1 is out of bounds -21: 0.006 s: api query_variants direct DP with invalid row range -21: 0.015 s: api query_variants direct DP and GT -9: 7e820c3ee657b1a27a56a7be9d202a7a7e820c3ee657b1a27a56a7be9d202a7a[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestG9gfWy/test_file -9: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestG9gfWy/test_file -20: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 hts_plugin could not find /tmp/GenomicsDBJRab39 +21: 0.039 s: api query_variants direct DP +21: 0.024 s: api query_variants direct DP with huge row range +20: 0.081 s: columnar_gvcf_iterator_test +20: 07:29:17.983 ERROR NativeGenomicsDB - pid=533300 tid=533300 hts_plugin could not find /tmp/GenomicsDBKfrxYt 20: [TileDB] Error: No TileDB support for URL=dfdfd://ddd. -20: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 htslib_plugin could not open dfdfd://ddd +20: 07:29:17.983 ERROR NativeGenomicsDB - pid=533300 tid=533300 htslib_plugin could not open dfdfd://ddd 20: No TileDB support for URL=dfdfd://ddd -20: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 hts_plugin could not find /tmp/GenomicsDBJRab39/foo -20: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 hts_plugin could not find /tmp/GenomicsDBJRab39/foo +20: 07:29:17.983 ERROR NativeGenomicsDB - pid=533300 tid=533300 hts_plugin could not find /tmp/GenomicsDBKfrxYt/foo +20: 07:29:17.983 ERROR NativeGenomicsDB - pid=533300 tid=533300 hts_plugin could not find /tmp/GenomicsDBKfrxYt/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: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 07:29:17.983 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 22:43:11.435 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 0.123 s: test htslib plugin +20: 07:29:17.983 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 0.068 s: api query_variants direct DP and GT with PP -21: 22:43:11.451 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:11.451 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:11.451 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:11.459 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:11.459 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:11.460 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:11.470 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:11.470 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:11.470 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.020 s: api query_variants with json -21: 22:43:11.470 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:11.470 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:11.471 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.029 s: api query_variants direct DP with huge disjoint row ranges +21: 0.023 s: api query_variants direct DP with range composed of multiple points +21: 0.026 s: api query_variants direct DP with range composed of overlapping ranges +21: 07:29:18.054 ERROR NativeGenomicsDB - pid=533318 tid=533318 Query interval 0:-100-1 is out of bounds +21: 0.016 s: api query_variants direct DP with invalid row range +17: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/tmp/TileDBTestCNRaaV/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/TileDBTestSTYcTM/test_posixfs_dirread_write/foo +17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestSTYcTM/test_posixfs_dirread_write/foo +17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestSTYcTM/test_posixfs_dirread_write/foo +21: 0.033 s: api query_variants direct DP and GT +21: 0.035 s: api query_variants direct DP and GT with PP +21: 07:29:18.125 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.125 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.126 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.143 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.143 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.143 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.162 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.162 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.163 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.040 s: api query_variants with json +21: 07:29:18.163 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.163 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.164 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/ws/t0_1_2/.__consolidation_lock -21: 22:43:11.484 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:11.484 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:11.484 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:11.496 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:11.496 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:11.496 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.027 s: api query variants with json string -17: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/tmp/TileDBTestHMv4qR/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/TileDBTestQXgxmj/test_posixfs_dirread_write/foo -17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestQXgxmj/test_posixfs_dirread_write/foo -17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestQXgxmj/test_posixfs_dirread_write/foo -21: 22:43:11.697 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:11.697 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:11.698 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -14: Thu Oct 30 22:43:11 2025 Memory stats Tracking memory usage END size=6MB resident=4MB share=4MB text=496KB lib=0 data=536KB dt=0 -14: Test rusage -14: user cpu time=0seconds 0microseconds -14: sys cpu time=0seconds 2143microseconds -14: maximum resident set size: 4064KB -14: =============================================================================== -14: test cases: 1 | 1 passed -14: assertions: - none - -14: -12/22 Test #14: test_mem_utils ................... Passed 1.00 sec -21: 0.215 s: api query variants with enabled shared posixfs optimizations -9: =============================================================================== -9: All tests passed (10488239 assertions in 9 test cases) -9: -13/22 Test #9: test_tiledb_utils ................ Passed 1.20 sec +21: 07:29:18.182 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.182 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.183 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.200 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.200 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.201 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.038 s: api query variants with json string +21: 07:29:18.201 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.201 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.202 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.017 s: api query variants with enabled shared posixfs optimizations 21: ---------------- 21: Interval:[0,9223372036854775806] 21: @@ -6735,7 +6757,7 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 -21: 0.278 s: api query_variant_calls direct +21: 0.049 s: api query_variant_calls direct 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6764,7 +6786,7 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 0.025 s: api query_variant_calls direct DP and GT +21: 0.034 s: api query_variant_calls direct DP and GT 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6793,10 +6815,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 0.025 s: api query_variant_calls direct DP and GT with PP -21: 22:43:12.041 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.041 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.041 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +14: Fri Dec 4 07:29:18 2026 Memory stats Tracking memory usage END size=6MB resident=4MB share=4MB text=496KB lib=0 data=536KB dt=0 +14: Test rusage +14: user cpu time=0seconds 3730microseconds +14: sys cpu time=0seconds 0microseconds +14: maximum resident set size: 4000KB +14: =============================================================================== +14: test cases: 1 | 1 passed +14: assertions: - none - +14: +12/22 Test #14: test_mem_utils ................... Passed 1.01 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) +21: 0.044 s: api query_variant_calls direct DP and GT with PP +21: 07:29:18.345 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.346 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.346 DEBUG NativeGenomicsDB - pid=533318 tid=533318 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: @@ -6825,20 +6859,21 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] DP:76 -21: 22:43:12.050 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.050 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.051 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.057 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.057 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.057 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.017 s: api query_variant_calls with json -21: 22:43:12.058 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.058 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.058 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.058 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.058 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.059 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.059 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.359 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.359 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.360 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.376 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.376 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.377 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.032 s: api query_variant_calls with json +21: 07:29:18.378 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.378 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.378 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.379 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.379 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.379 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.379 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +19: Example 6: Done running ./tiledb_array_write_dense_1 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6867,13 +6902,15 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.067 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.067 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.067 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.068 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.068 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.068 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.068 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +19: Example 7: Running ./tiledb_array_write_sparse_1... +21: 07:29:18.400 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.400 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.401 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.401 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.401 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.402 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.402 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +17: [TileDB::FileSystem] Error: (read_from_file) Cannot open simultaneously for reads/writes path=test_posixfs_dir_locking/foo 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6902,22 +6939,28 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.077 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.077 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.077 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.077 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.077 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.078 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.078 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.006 s: Try query with contig intervals instead of tiledb column intervals -21: 0.026 s: api query_variant_calls with protobuf -21: 22:43:12.083 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.083 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.083 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.084 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.084 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.084 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.084 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.424 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.424 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.425 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +17: [TileDB::FileSystem] Error: (~PosixFS) File does not seem to be closed path=test_dir_locking1/foo_sync +21: 07:29:18.425 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.425 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.426 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.426 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +17: [TileDB::FileSystem] Error: (~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: +21: 0.018 s: Try query with contig intervals instead of tiledb column intervals +21: 0.065 s: api query_variant_calls with protobuf +13/22 Test #17: test_posixfs ..................... Passed 1.11 sec +21: 07:29:18.442 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.442 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.443 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.444 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.444 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.444 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.444 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6946,13 +6989,14 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.093 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.093 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.093 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.093 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.093 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.093 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.093 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.466 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.466 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.467 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.468 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.468 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.468 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.468 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +19: Example 7: Done running ./tiledb_array_write_sparse_1 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -6981,22 +7025,28 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.102 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.102 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.102 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.103 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.103 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.103 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.103 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.006 s: Try query with a filter -21: 0.025 s: api query_variant_calls with protobuf -21: 22:43:12.108 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.108 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.109 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.109 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.109 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.109 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.109 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.488 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.488 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.488 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.489 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.489 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.490 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.490 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +5: Randomness seeded to: 2972532588 +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: +14/22 Test #5: test_array_iterator .............. Passed 1.32 sec +21: 0.017 s: Try query with a filter +21: 0.062 s: api query_variant_calls with protobuf +21: 07:29:18.505 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.505 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.505 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.506 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.506 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.506 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.506 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7025,13 +7075,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.118 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.118 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.118 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.119 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.119 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.119 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.119 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.528 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.528 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.528 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.529 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.529 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.529 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.529 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7060,22 +7110,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.130 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.130 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.131 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.131 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.131 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.131 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.132 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.013 s: Try query with a filter and workspace with GT ploidy -21: 0.035 s: api query_variant_calls with protobuf -21: 22:43:12.143 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.144 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.144 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.145 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.145 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.145 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.145 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.550 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.550 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.551 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.551 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.551 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.552 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.552 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.024 s: Try query with a filter and workspace with GT ploidy +21: 0.069 s: api query_variant_calls with protobuf +21: 07:29:18.574 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.574 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.574 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.575 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.575 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.576 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.576 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7104,13 +7154,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.163 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.163 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.163 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.164 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.164 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.164 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.164 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.599 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.599 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.599 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.600 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.600 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.600 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.600 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7139,22 +7189,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.180 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.180 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.181 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.181 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.181 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.181 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.181 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.008 s: Try query with a filter and a small segment size to force TileDB buffers overflow -21: 0.045 s: api query_variant_calls with protobuf -21: 22:43:12.188 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.188 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.189 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.189 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.189 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.190 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.190 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.622 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.622 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.622 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.623 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.623 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.624 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.624 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.018 s: Try query with a filter and a small segment size to force TileDB buffers overflow +21: 0.066 s: api query_variant_calls with protobuf +21: 07:29:18.640 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.640 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.641 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.642 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.642 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.642 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.642 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7183,13 +7233,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.200 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.200 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.200 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.201 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.201 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.201 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.201 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.666 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.666 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.666 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.667 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.667 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.668 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.668 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7218,29 +7268,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -17: [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) -17: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) -21: 22:43:12.213 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.213 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.213 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.214 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.214 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.214 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.214 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -19: Example 6: Done running ./tiledb_array_write_dense_1 -19: Example 7: Running ./tiledb_array_write_sparse_1... -21: 0.015 s: Try query with POS and ROW with no match -21: 0.040 s: api query_variant_calls with protobuf -21: 22:43:12.228 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.228 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.229 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.229 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.229 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.229 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.229 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -17: [TileDB::FileSystem] Error: (read_from_file) Cannot open simultaneously for reads/writes path=test_posixfs_dir_locking/foo -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 +21: 07:29:18.687 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.687 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.687 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.688 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.688 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.689 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.689 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.019 s: Try query with POS and ROW with no match +21: 0.066 s: api query_variant_calls with protobuf +21: 07:29:18.706 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.706 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.707 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.707 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.707 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.708 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.708 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7269,18 +7312,17 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -17: =============================================================================== -17: All tests passed (258 assertions in 11 test cases) -17: -14/22 Test #17: test_posixfs ..................... Passed 1.54 sec -21: 22:43:12.246 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.246 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.246 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.247 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.247 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.247 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.247 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -19: Example 7: Done running ./tiledb_array_write_sparse_1 +9: =============================================================================== +9: All tests passed (10488239 assertions in 9 test cases) +9: +21: 07:29:18.728 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.728 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.729 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +15/22 Test #9: test_tiledb_utils ................ Passed 1.51 sec +21: 07:29:18.729 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.729 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.730 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.730 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7309,28 +7351,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.267 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.267 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.268 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.269 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.269 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.269 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.269 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -5: Randomness seeded to: 3493341140 -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: -15/22 Test #5: test_array_iterator .............. Passed 1.59 sec -21: 0.013 s: Try query with POS and ROW -21: 0.053 s: api query_variant_calls with protobuf -21: 22:43:12.281 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.281 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.281 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.282 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.282 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.282 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.282 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.750 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.750 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.751 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.752 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.752 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.752 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.752 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.019 s: Try query with POS and ROW +21: 0.064 s: api query_variant_calls with protobuf +21: 07:29:18.770 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.770 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.770 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.771 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.771 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.771 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.771 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7359,13 +7395,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.300 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.300 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.300 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.301 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.301 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.302 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.302 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.793 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.793 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.793 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.794 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.794 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.795 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.795 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7394,22 +7430,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.320 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.320 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.320 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.321 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.321 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.321 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.321 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.014 s: Try query with ISHOMREF -21: 0.053 s: api query_variant_calls with protobuf -21: 22:43:12.334 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.334 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.334 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.335 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.335 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.335 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.335 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.816 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.816 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.816 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.817 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.817 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.818 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.818 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.019 s: Try query with ISHOMREF +21: 0.065 s: api query_variant_calls with protobuf +21: 07:29:18.835 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.835 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.835 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.836 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.836 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.836 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.836 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7438,13 +7474,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.353 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.354 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.354 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.354 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.354 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.355 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.355 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.857 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.857 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.858 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.859 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.859 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.859 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.859 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7473,22 +7509,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.365 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.365 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.365 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.366 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.366 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.366 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.366 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.008 s: Try query with ISHOMREF -21: 0.039 s: api query_variant_calls with protobuf -21: 22:43:12.373 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.373 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.373 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.373 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.373 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.374 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.374 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.881 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.881 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.881 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.882 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.882 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.883 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.883 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.018 s: Try query with ISHOMREF +21: 0.065 s: api query_variant_calls with protobuf +21: 07:29:18.900 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.900 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.900 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.901 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.901 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.902 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.902 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7517,13 +7553,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.383 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.383 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.384 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.384 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.384 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.384 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.384 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.921 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.921 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.922 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.922 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.922 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.923 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.923 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7552,22 +7588,22 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.394 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.394 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.394 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.395 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.395 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.395 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.395 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.008 s: Try query with ISHOMREF -21: 0.029 s: api query_variant_calls with protobuf -21: 22:43:12.402 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.402 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.402 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.403 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.403 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.403 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.403 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.943 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.943 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.943 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.944 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.944 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.944 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.944 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.018 s: Try query with ISHOMREF +21: 0.061 s: api query_variant_calls with protobuf +21: 07:29:18.961 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.961 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.961 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.962 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.962 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.962 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.962 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7596,13 +7632,13 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -21: 22:43:12.413 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.413 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.413 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.414 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.414 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.414 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.414 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.983 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:18.984 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.984 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.985 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:18.985 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:18.985 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:18.985 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: @@ -7631,40 +7667,36 @@ 21: genomic_interval=1:17385,17385 21: genomic_fields 21: REF:G ALT:[A, ] GT:0/1 DP:76 -18: =============================================================================== -18: All tests passed (450703 assertions in 3 test cases) -18: -16/22 Test #18: test_storage_buffer .............. Passed 1.72 sec -21: 22:43:12.424 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.424 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.424 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.425 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.425 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.425 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.425 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 0.008 s: Try query with ISHOMREF -21: 0.030 s: api query_variant_calls with protobuf -21: 0.006 s: Base configuration -21: 0.006 s: api query_variant_calls with protobuf and config -21: 22:43:12.439 ERROR NativeGenomicsDB - pid=60929 tid=60929 Could not parse query_configuration. Only protobuf QueryConfiguration binary strings accepted as input argument +21: 07:29:19.002 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:19.002 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:19.003 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:19.003 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:19.003 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:19.003 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:19.003 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 0.016 s: Try query with ISHOMREF +21: 0.057 s: api query_variant_calls with protobuf +21: 0.012 s: Base configuration +21: 0.015 s: api query_variant_calls with protobuf and config +21: 07:29:19.034 ERROR NativeGenomicsDB - pid=533318 tid=533318 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: 0.005 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: 0.006 s: Test filter test for 0 -21: 0.006 s: api query_variant_calls with protobuf new -21: 0.006 s: Test filter test for 1 -21: 0.006 s: api query_variant_calls with protobuf new -21: 0.006 s: Test filter test for 2 -21: 0.006 s: api query_variant_calls with protobuf new -21: 0.006 s: Test filter test for 3 -21: 0.006 s: api query_variant_calls with protobuf new +21: 0.002 s: api query_variant_calls with protobuf and config +21: 0.012 s: Subset Array using QueryConfiguration +21: 0.014 s: api query_variant_calls with protobuf and config +21: 0.012 s: Subset Array using ExportConfiguration +21: 0.016 s: api query_variant_calls with protobuf and config +21: 0.013 s: Subset Array using QueryConfiguration - two intervals +21: 0.016 s: api query_variant_calls with protobuf and config +21: 0.016 s: Subset Array using QueryConfiguration - multiple queries +21: 0.019 s: api query_variant_calls with protobuf and config +21: 0.014 s: Test filter test for 0 +21: 0.014 s: api query_variant_calls with protobuf new +21: 0.016 s: Test filter test for 1 +21: 0.016 s: api query_variant_calls with protobuf new +21: 0.015 s: Test filter test for 2 +21: 0.015 s: api query_variant_calls with protobuf new +21: 0.015 s: Test filter test for 3 +21: 0.016 s: api query_variant_calls with protobuf new 21: 273 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"REF":["C","G"],"GT":["C/C","G/A"],"DP":[null,null]},"HG01530":{"CHR":["1"],"POS":[17385],"REF":["G"],"GT":["G/A"],"DP":[76]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"REF":["C","G"],"GT":["C/C","T/T"],"DP":[null,120]}} 21: 21: 207 {"FIELD":["CHR","POS","REF","GT","DP"],"HG00141":[["1",12141,"C","C/C",null],["1",17385,"G","G/A",null]],"HG01530":[["1",17385,"G","G/A",76]],"HG01958":[["1",12145,"C","C/C",null],["1",17385,"G","T/T",120]]} @@ -7679,102 +7711,106 @@ 21: 21: 1999 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"REF":["C","G"],"QUAL":[null,475.7699890136719],"FILTER":[null,"0"],"DP":[null,null],"BaseQRankSum":[null,-2.0959999561309816],"ClippingRankSum":[null,-1.8589999675750733],"DS":["1","1"],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MLEAC":[null,"1, 5"],"MLEAF":[null,"0.500000, 1.200000"],"MQ":[null,31.719999313354493],"RAW_MQ":[null,5.5],"MQ0":[null,8],"MQRankSum":[null,-0.32899999618530276],"ReadPosRankSum":[null,0.004999999888241291],"PGT":[null,"0|1"],"PID":[null,"17385_G_A"],"AD":[null,"58, 22, 17"],"DP_FORMAT":[2,80],"GQ":[0,99],"GT":["C/C","G/A"],"MIN_DP":[0,null],"PL":["0, 0, 0","504, 0, 9807, 678, 1870, 2548"],"SB":[null,"58, 0, 22, 0"]},"HG01530":{"CHR":["1"],"POS":[17385],"REF":["G"],"QUAL":[989.77001953125],"FILTER":[null],"DP":[76],"BaseQRankSum":[1.0460000038146973],"ClippingRankSum":[-2.242000102996826],"DS":[null],"HaplotypeScore":[null],"InbreedingCoeff":[null],"MLEAC":["1, 0"],"MLEAF":["0.500000, 0.000000"],"MQ":[59.369998931884769],"RAW_MQ":[null],"MQ0":[0],"MQRankSum":[-0.4320000112056732],"ReadPosRankSum":[2.055000066757202],"PGT":[null],"PID":[null],"AD":["40, 36, 0"],"DP_FORMAT":[76],"GQ":[99],"GT":["G/A"],"MIN_DP":[null],"PL":["1018, 0, 1116, 1137, 1224, 2361"],"SB":["9, 31, 13, 23"]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"REF":["C","G"],"QUAL":[null,3302.77001953125],"FILTER":[null,"0"],"DP":[null,120],"BaseQRankSum":[null,-2.0739998817443849],"ClippingRankSum":[null,0.5550000071525574],"DS":["1",null],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MLEAC":[null,"2, 7"],"MLEAF":[null,"1.000000, 0.700000"],"MQ":[null,29.81999969482422],"RAW_MQ":[null,2.5],"MQ0":[null,3],"MQRankSum":[null,-1.36899995803833],"ReadPosRankSum":[null,-0.10100000351667404],"PGT":[null,"0|1"],"PID":[null,"17385_G_T"],"AD":[null,"0, 120, 37"],"DP_FORMAT":[3,120],"GQ":[0,99],"GT":["C/C","T/T"],"MIN_DP":[0,null],"PL":["0, 0, 0","3336, 358, 0, 4536, 958, 7349"],"SB":[null,"0, 0, 0, 0"]}} 21: -21: 0.042 s: api query_variant_calls with JSONVariantCallProcessor +21: 0.056 s: api query_variant_calls with JSONVariantCallProcessor 21: 0.000 s: Test genomicsdb demo test case -21: 0.020 s: api generate_vcf direct -21: 22:43:12.551 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.551 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.551 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.009 s: api generate_vcf with json -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61164 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61164 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61165 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61165 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61163 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61162 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61162 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61167 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61167 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61164 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61169 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61169 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61163 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61166 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61166 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61162 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61165 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61168 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.561 WARN NativeGenomicsDB - pid=60929 tid=61168 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61167 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61169 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61166 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61163 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.561 DEBUG NativeGenomicsDB - pid=60929 tid=61168 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 0.019 s: api generate_vcf with json multiple threads -21: 22:43:12.579 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.579 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.579 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.580 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.580 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.580 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.580 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.588 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.588 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.588 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.588 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.588 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.589 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.589 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.596 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -21: 22:43:12.596 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.596 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.597 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -21: 22:43:12.597 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead -21: 22:43:12.597 DEBUG NativeGenomicsDB - pid=60929 tid=60929 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name -21: 22:43:12.597 WARN NativeGenomicsDB - pid=60929 tid=60929 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +18: =============================================================================== +18: All tests passed (450703 assertions in 3 test cases) +18: +16/22 Test #18: test_storage_buffer .............. Passed 1.91 sec +21: 0.379 s: api generate_vcf direct +21: 07:29:19.596 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:19.596 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:19.597 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +20: 07:29:19.655 INFO NativeGenomicsDB - pid=533300 tid=533300 Plink progress 3452039 / 6904084 = 50.00% +20: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 PL field for sample: HG00141 row: 0 column: 12277 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 +20: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 PL field for sample: HG00141 row: 0 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 +20: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 PL field for sample: HG01958 row: 1 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 +20: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 PL field for sample: HG00141 row: 0 column: 12399 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 +20: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 PL field for sample: HG01958 row: 1 column: 12399 contains a negative value or otherwise did not parse, full string: 0, 1, -2147483648 +20: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 ERROR NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:19.655 WARN NativeGenomicsDB - pid=533300 tid=533300 GL probabilities at sample: HG01958 row: 1 column: 12499 sum to 0.8981071705534972, expected near 1. Generated BGEN may be invalid +21: 0.423 s: api generate_vcf with json +21: 07:29:20.020 DEBUG NativeGenomicsDB - pid=533318 tid=536309 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:20.020 WARN NativeGenomicsDB - pid=533318 tid=536309 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.020 DEBUG NativeGenomicsDB - pid=533318 tid=536311 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:20.020 WARN NativeGenomicsDB - pid=533318 tid=536311 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.020 DEBUG NativeGenomicsDB - pid=533318 tid=536310 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:20.020 WARN NativeGenomicsDB - pid=533318 tid=536310 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.020 DEBUG NativeGenomicsDB - pid=533318 tid=536314 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:20.020 WARN NativeGenomicsDB - pid=533318 tid=536314 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.020 DEBUG NativeGenomicsDB - pid=533318 tid=536315 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:20.020 WARN NativeGenomicsDB - pid=533318 tid=536315 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536316 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:20.021 WARN NativeGenomicsDB - pid=533318 tid=536316 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536311 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536317 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536309 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.021 WARN NativeGenomicsDB - pid=533318 tid=536317 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536314 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536310 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536315 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.021 WARN NativeGenomicsDB - pid=533318 tid=536318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536316 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536317 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.021 DEBUG NativeGenomicsDB - pid=533318 tid=536318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +20: 2.059 s: test bgen +20: 07:29:20.043 ERROR NativeGenomicsDB - pid=533300 tid=533300 VariantStorageManagerException exception : Could not open workspace +20: 07:29:20.044 ERROR NativeGenomicsDB - pid=533300 tid=533300 Could not open array non_existent_array in workspace /tmp/GenomicsDBhtsCII/ws +20: 07:29:20.044 ERROR NativeGenomicsDB - pid=533300 tid=533300 VariantQueryProcessorException : Could not open array non_existent_array at workspace /tmp/GenomicsDBhtsCII/ws +20: 0.001 s: constructor +20: 07:29:20.044 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +20: 07:29:20.045 WARN NativeGenomicsDB - pid=533300 tid=533300 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +20: 07:29:20.045 DEBUG NativeGenomicsDB - pid=533300 tid=533300 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 0.027 s: api generate_vcf with json multiple threads +21: 07:29:20.047 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:20.047 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.048 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.049 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.049 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.049 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:20.049 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +20: 07:29:20.055 ERROR NativeGenomicsDB - pid=533300 tid=533300 Invalid query attribute : non_existent_attribute +20: 0.012 s: test basic queries +20: 07:29:20.056 INFO NativeGenomicsDB - pid=533300 tid=533300 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: 07:29:20.056 DEBUG NativeGenomicsDB - pid=533300 tid=533300 Deleting htslib_fs_adapter tiledb_ctx_map +17/22 Test #20: ctests ........................... Passed 2.64 sec +21: 07:29:20.066 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:20.066 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.067 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.067 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.067 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.068 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:20.068 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.084 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn +21: 07:29:20.084 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.085 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.086 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name +21: 07:29:20.086 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead +21: 07:29:20.086 DEBUG NativeGenomicsDB - pid=533318 tid=533318 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name +21: 07:29:20.086 WARN NativeGenomicsDB - pid=533318 tid=533318 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: ---------------- 21: Interval:[0,1000000000] 21: 21: ---------------- 21: Interval:[0,1000000000] 21: -21: 0.019 s: api annotate query_variant_calls with test datasource 0 +21: 0.040 s: api annotate query_variant_calls with test datasource 0 21: =============================================================================== 21: All tests passed (1548 assertions in 26 test cases) 21: -17/22 Test #21: api_tests ........................ Passed 1.89 sec -20: 22:43:13.453 INFO NativeGenomicsDB - pid=60927 tid=60927 Plink progress 3452039 / 6904084 = 50.00% -20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG00141 row: 0 column: 12277 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 -20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG00141 row: 0 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 -20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG01958 row: 1 column: 12299 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 -20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG00141 row: 0 column: 12399 contains a negative value or otherwise did not parse, full string: -2147483648, -2147483648, -2147483648 -20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 PL field for sample: HG01958 row: 1 column: 12399 contains a negative value or otherwise did not parse, full string: 0, 1, -2147483648 -20: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 ERROR NativeGenomicsDB - pid=60927 tid=60927 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: 22:43:13.453 WARN NativeGenomicsDB - pid=60927 tid=60927 GL probabilities at sample: HG01958 row: 1 column: 12499 sum to 0.8981071705534972, expected near 1. Generated BGEN may be invalid -20: 2.387 s: test bgen -20: 22:43:13.823 ERROR NativeGenomicsDB - pid=60927 tid=60927 VariantStorageManagerException exception : Could not open workspace -20: 22:43:13.823 ERROR NativeGenomicsDB - pid=60927 tid=60927 Could not open array non_existent_array in workspace /tmp/GenomicsDBrtQEzr/ws -20: 22:43:13.823 ERROR NativeGenomicsDB - pid=60927 tid=60927 VariantQueryProcessorException : Could not open array non_existent_array at workspace /tmp/GenomicsDBrtQEzr/ws -20: 0.000 s: constructor -20: 22:43:13.823 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn -20: 22:43:13.823 WARN NativeGenomicsDB - pid=60927 tid=60927 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead -20: 22:43:13.823 DEBUG NativeGenomicsDB - pid=60927 tid=60927 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name -20: 22:43:13.829 ERROR NativeGenomicsDB - pid=60927 tid=60927 Invalid query attribute : non_existent_attribute -20: 0.006 s: test basic queries -20: 22:43:13.829 INFO NativeGenomicsDB - pid=60927 tid=60927 Mem usage Check basic memory usage rss=50M -20: 0.000 s: check basic memory usage -20: =============================================================================== -20: All tests passed (1439 assertions in 34 test cases) -20: -20: 22:43:13.829 DEBUG NativeGenomicsDB - pid=60927 tid=60927 Deleting htslib_fs_adapter tiledb_ctx_map -18/22 Test #20: ctests ........................... Passed 3.13 sec -7: Randomness seeded to: 410320414 +18/22 Test #21: api_tests ........................ Passed 2.89 sec +7: Randomness seeded to: 154489398 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 @@ -7799,12 +7835,7 @@ 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... -8: Randomness seeded to: 3459830065 19: Example 10: Done running ./tiledb_array_write_dense_2 -8: 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] =============================================================================== -8: All tests passed (11647013 assertions in 15 test cases) -8: -19/22 Test #8: test_sparse_array_api ............ Passed 12.65 sec 19: Example 11: Running ./tiledb_array_read_dense_1... 19: a1 a2 (a3.first, a3.second) 19: ----------------------------------------- @@ -7838,13 +7869,11 @@ 19: 15 19: Example 12: Done running ./tiledb_array_read_dense_2 19: Example 13: Running ./tiledb_array_write_dense_sorted... -19: Example 13: Done running ./tiledb_array_write_dense_sorted 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 (150274626 assertions in 4 test cases) +7: All tests passed (109832778 assertions in 4 test cases) 7: -20/22 Test #7: test_dense_array_api ............. Passed 16.89 sec -22: Build with DISABLE_MPI option set, not running gt_mpi_gather tests -21/22 Test #22: tools_tests ...................... Passed 20.32 sec +19/22 Test #7: test_dense_array_api ............. Passed 17.19 sec +19: Example 13: Done running ./tiledb_array_write_dense_sorted 19: Example 14: Running ./tiledb_array_read_dense_1... 19: a1 a2 (a3.first, a3.second) 19: ----------------------------------------- @@ -7867,6 +7896,11 @@ 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 +8: Randomness seeded to: 3532409959 +8: 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] =============================================================================== +8: All tests passed (5872369 assertions in 15 test cases) +8: +20/22 Test #8: test_sparse_array_api ............ Passed 30.58 sec 19: Example 16: Running ./tiledb_array_read_dense_1... 19: a1 a2 (a3.first, a3.second) 19: ----------------------------------------- @@ -7990,6 +8024,8 @@ 19: Example 29: Done running ./tiledb_array_read_sparse_filter_2 19: Example 30: Running ./tiledb_array_update_sparse_1... 19: Example 30: Done running ./tiledb_array_update_sparse_1 +22: Build with DISABLE_MPI option set, not running gt_mpi_gather tests +21/22 Test #22: tools_tests ...................... Passed 49.48 sec 19: Example 31: Running ./tiledb_array_read_sparse_1... 19: coords a1 a2 (a3.first, a3.second) 19: -------------------------------------------------- @@ -8109,17 +8145,17 @@ 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 57.81 sec +22/22 Test #19: ci_tests ......................... Passed 66.19 sec 100% tests passed, 0 tests failed out of 22 -Total Test time (real) = 57.84 sec +Total Test time (real) = 66.46 sec make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' debian/rules override_dh_auto_test-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_build - cd obj-x86_64-linux-gnu && make -j40 INSTALL="install --strip-program=true" VERBOSE=1 + cd obj-x86_64-linux-gnu && make -j42 INSTALL="install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu//CMakeFiles/progress.marks @@ -8131,85 +8167,94 @@ make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". 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Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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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-1.5.5/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/utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". @@ -8218,46 +8263,26 @@ 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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". 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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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". +[ 0%] Built target PROTOBUF_GENERATED_CXX_TARGET +make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main 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/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target TILEDB_CORE_OBJECTS -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/DependInfo.cmake "--color=" -[ 25%] Built target TILEDB_CORE_OBJECTS -make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/depend -make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target TILEDB_CORE_OBJECTS Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". @@ -8271,27 +8296,19 @@ Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_shared Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 13%] Built target genomicsdb-hts Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -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/genomicsdb/variant_field_handler.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -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/loader/genomicsdb_importer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". @@ -8312,1081 +8329,1100 @@ Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". -[ 25%] Built target tiledb_static Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". +[ 25%] Built target TILEDB_CORE_OBJECTS +make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/depend +make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/compiler_depend.internal". +[ 25%] Built target tiledb_static make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/depend -[ 26%] Built target tiledb_shared +Consolidate compiler generated dependencies of target tiledb_shared +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target GenomicsDB_library_object_files +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build 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 -make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend +make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.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_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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend +make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_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 +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 make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_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 -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" +make -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 -make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.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 +Consolidate compiler generated dependencies of target test_print_array_schema +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test 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/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu 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"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples 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"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" -make -f 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" -make -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/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". -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-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_print_book_keeping -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" -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-1.5.5/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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.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 -Consolidate compiler generated dependencies of target test_sparse_array_benchmark -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_print_array_schema -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". +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-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_array_schema_api +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build Consolidate compiler generated dependencies of target test_sparse_array_api -Consolidate compiler generated dependencies of target test_dense_array_api -Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_array_iterator make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" -Consolidate compiler generated dependencies of target test_expressions +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_array_schema -make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build -Consolidate compiler generated dependencies of target test_tiledb_utils make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_codec -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 -Dependencies file 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genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". -Dependencies file 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"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_codec make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". -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_create_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_aio_write_dense -Consolidate compiler generated dependencies of target tiledb_array_consolidate -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_3d -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make 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"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_filter_api +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Consolidate compiler generated dependencies of target test_posixfs -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/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build +make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -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_array_schema_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". +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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_storage_buffer +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build +Consolidate compiler generated dependencies of target test_mem_utils make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/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_sparse_array_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". -make -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_consolidate_dense -Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse -Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse_filter -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build'. +Consolidate compiler generated dependencies of target test_dense_array_api make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build -Dependencies file 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genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build +Consolidate compiler generated dependencies of target test_expressions +Consolidate compiler generated dependencies of target tiledb_array_consolidate +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target test_utils make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 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"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build'. Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/compiler_depend.internal". +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d" is newer than depends file 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"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_iterator_dense -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_1 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/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_3d.dir/src/tiledb_array_3d.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". +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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_aio_write_dense +Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_sparse +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_aio_read_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 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'/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build +Consolidate compiler generated dependencies of target tiledb_array_3d +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build'. -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_1 +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build'. +Consolidate compiler generated dependencies of target tiledb_array_create_sparse make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build'. -Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_2 +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[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build'. +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make 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_aio_read_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target test_uri make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build -Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build'. +[ 26%] Built target test_print_book_keeping make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build +[ 27%] Built target test_print_array_schema +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build +make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build 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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build'. -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_2 -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_primitive +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build'. +Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 28%] Built target test_sparse_array_benchmark make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build +Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse_filter make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 28%] Built target test_array_schema +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 43%] Built target GenomicsDB_library_object_files make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_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_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_sparse +[ 44%] Built target test_sparse_array_api make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build +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 +[ 45%] Built target test_array_schema_api make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build'. +[ 46%] Built target test_tiledb_utils +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 47%] Built target test_codec +[ 48%] Built target test_filter_api +[ 49%] Built target test_array_iterator +[ 49%] Built target test_expressions +[ 49%] Built target test_mem_utils +[ 49%] Built target test_codec_filter +[ 50%] Built target test_utils +[ 52%] Built target test_posixfs +[ 52%] Built target test_storage_buffer +[ 52%] Built target tiledb_array_3d +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 +[ 50%] Built target tiledb_array_aio_read_dense +[ 53%] Built target tiledb_array_aio_write_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/DependInfo.cmake "--color=" +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 +[ 54%] Built target test_dense_array_api +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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 27%] Built target test_array_iterator -[ 27%] Built target test_expressions -[ 27%] Built target test_print_book_keeping -[ 28%] Built target test_sparse_array_benchmark -[ 29%] Built target test_print_array_schema -[ 30%] Built target test_tiledb_utils -[ 31%] Built target test_dense_array_api -[ 31%] Built target test_array_schema -[ 32%] Built target test_codec -[ 32%] Built target test_mem_utils -[ 32%] Built target test_uri -[ 33%] Built target test_sparse_array_api -[ 33%] Built target test_codec_filter -[ 34%] Built target test_filter_api +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" +make -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 +[ 55%] Built target tiledb_array_create_dense +[ 55%] Built target tiledb_array_create_sparse +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/depend +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-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" +[ 56%] Built target tiledb_array_consolidate +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" +[ 56%] Built target tiledb_array_iterator_dense +[ 56%] Built target test_uri +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" +[ 57%] Built target tiledb_array_iterator_sparse +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.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/depend -[ 35%] Built target test_array_schema_api +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" +[ 58%] Built target tiledb_array_parallel_consolidate_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" make -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 -[ 35%] Built target tiledb_array_aio_read_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" -[ 36%] Built target test_utils +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" +[ 58%] Built target tiledb_array_parallel_consolidate_dense +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/depend -[ 37%] Built target tiledb_array_consolidate +[ 59%] Built target tiledb_array_iterator_sparse_filter make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" -[ 38%] Built target tiledb_array_3d +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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" -[ 39%] Built target tiledb_array_aio_write_dense +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 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" -[ 39%] Built target tiledb_array_create_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" -make -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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend -[ 40%] Built target tiledb_array_parallel_consolidate_dense -[ 40%] Built target tiledb_array_iterator_sparse -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". +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 -[ 41%] Built target tiledb_array_iterator_sparse_filter -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 +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_mpi_io_dense +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_1 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" -[ 42%] Built target tiledb_array_parallel_read_mpi_io_dense -[ 42%] Built target test_storage_buffer -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" -[ 43%] Built target tiledb_array_parallel_read_dense_2 -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_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 -[ 44%] Built target tiledb_array_create_sparse -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 -Consolidate compiler generated dependencies of target GenomicsDB_library_object_files -[ 45%] Built target tiledb_array_parallel_write_dense_2 -[ 45%] Built target tiledb_array_parallel_read_sparse_1 -[ 45%] Built target test_posixfs -[ 46%] Built target tiledb_array_parallel_consolidate_sparse -[ 46%] Built target tiledb_array_parallel_read_dense_1 -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" -[ 46%] Built target tiledb_array_iterator_dense -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" -[ 47%] Built target tiledb_array_parallel_read_sparse_2 -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend -[ 48%] Built target tiledb_array_parallel_write_dense_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend -[ 48%] Built target tiledb_array_parallel_write_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" -make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +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/src/tiledb_array_parallel_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" -[ 49%] Built target tiledb_array_parallel_write_sparse_1 -[ 50%] Built target tiledb_array_primitive -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_2 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/depend -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_2 +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake "--color=" -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.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_parallel_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_2 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.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 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_dense_1 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_1 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_read_dense_3 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_read_dense_sorted Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_2 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_1 -Consolidate compiler generated dependencies of target tiledb_array_read_sparse_1 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_read_dense_3 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_primitive +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file 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"genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_read_dense_2 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". -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 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_write_dense_1 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_update_dense_2 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". +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 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_update_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-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_1 +Consolidate compiler generated dependencies of target tiledb_array_read_dense_2 +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build -Consolidate compiler generated dependencies of target tiledb_array_update_sparse_1 -Consolidate compiler generated dependencies of target tiledb_array_update_sparse_2 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". +make -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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_2 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build -Consolidate compiler generated dependencies of target tiledb_array_write_dense_2 -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build'. +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 +Consolidate compiler generated dependencies of target tiledb_array_read_dense_sorted +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_sorted +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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_write_sparse_1 -Consolidate compiler generated dependencies of target tiledb_array_write_dense_sorted -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build -Consolidate compiler generated dependencies of target tiledb_array_write_sparse_2 +Consolidate compiler generated dependencies of target tiledb_array_update_sparse_1 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_clear_delete_move +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_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build +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-1.5.5/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_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build +Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_2 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file 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"genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_array_write_sparse_4 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_array_write_sparse_3 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build +Consolidate compiler generated dependencies of target tiledb_array_write_dense_1 +Consolidate compiler generated dependencies of target tiledb_array_write_dense_sorted +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". -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_config.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". -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 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". -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_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". +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 +Consolidate compiler generated dependencies of target tiledb_array_write_sparse_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/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_catching_errors -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". -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 -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". -make -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_metadata_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_config make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_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_update_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +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 +Consolidate compiler generated dependencies of target tiledb_array_update_dense_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 +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledb_ls -Consolidate compiler generated dependencies of target tiledb_metadata_iterator -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build -Consolidate compiler generated dependencies of target tiledb_delete -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_metadata_consolidate make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_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_update.dir/src/tiledb_metadata_update.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". -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_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_ls_workspaces -Consolidate compiler generated dependencies of target tiledb_metadata_create -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_metadata_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_metadata_write -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build -Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". +make -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-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_metadata_read -Consolidate compiler generated dependencies of target tiledb_metadata_update +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-1.5.5/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_update_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build'. -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 60%] Built target tiledb_array_parallel_read_mpi_io_dense +[ 60%] Built target tiledb_array_parallel_read_dense_1 +[ 60%] Built target tiledb_array_parallel_read_sparse_1 +[ 60%] Built target tiledb_array_parallel_write_dense_2 +[ 61%] Built target tiledb_array_parallel_read_sparse_2 +[ 62%] Built target tiledb_array_parallel_write_sparse_1 +[ 63%] Built target tiledb_array_parallel_read_dense_2 +[ 64%] Built target tiledb_array_parallel_write_dense_1 +[ 65%] Built target tiledb_array_read_dense_1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/depend +make -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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/depend +[ 65%] Built target tiledb_array_parallel_write_sparse_2 +[ 65%] Built target tiledb_array_read_sparse_1 +[ 66%] Built target tiledb_array_primitive +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend +[ 67%] Built target tiledb_array_read_dense_3 +[ 67%] Built target tiledb_array_read_dense_2 +[ 68%] Built target tiledb_array_read_sparse_2 +[ 69%] Built target tiledb_array_write_dense_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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build'. +[ 70%] Built target tiledb_array_read_sparse_filter_1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" +[ 71%] Built 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 +[ 71%] Built target tiledb_array_read_sparse_filter_2 +[ 72%] Built target tiledb_array_read_sparse_sorted +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" +[ 72%] Built target tiledb_array_write_dense_2 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/depend +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend +[ 73%] Built target tiledb_array_write_dense_sorted +[ 73%] Built target tiledb_array_update_sparse_1 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" +[ 74%] 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 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend +[ 75%] Built target tiledb_array_write_sparse_1 +[ 75%] Built target tiledb_array_update_dense_1 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.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 +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/depend +make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" +Consolidate compiler generated dependencies of target tiledb_delete +[ 76%] Built target tiledb_array_update_sparse_2 +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_write_sparse_2 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_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build'. -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_array_write_sparse_4 +Consolidate compiler generated dependencies of target tiledb_array_write_sparse_3 +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_clear_delete_move +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target tiledb_metadata_primitive -Consolidate compiler generated dependencies of target tiledb_workspace_group_create +Consolidate compiler generated dependencies of target tiledb_config +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build'. +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_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 -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_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". +make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/depend +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build'. +Consolidate compiler generated dependencies of target tiledb_ls +Consolidate compiler generated dependencies of target tiledb_catching_errors make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build +Consolidate compiler generated dependencies of target tiledb_ls_workspaces make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build'. +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_metadata_consolidate +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build'. +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build +Consolidate compiler generated dependencies of target tiledb_metadata_iterator +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build'. +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_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]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_metadata_update +Dependencies file "src/main/CMakeFiles/tiledbgenomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target tiledb_metadata_read +Consolidate compiler generated dependencies of target tiledb_metadata_create make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build'. +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Consolidate compiler generated dependencies of target tiledb_metadata_primitive +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build +Consolidate compiler generated dependencies of target tiledbgenomicsdb +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build +[ 77%] Built target tiledb_delete make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". +[ 77%] Built target tiledb_array_write_sparse_4 +Consolidate compiler generated dependencies of target tiledb_metadata_write make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 77%] Built target tiledb_config +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build'. +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/build +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". +Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +[ 78%] Built target tiledb_array_write_sparse_3 +make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 50%] Built target tiledb_array_read_sparse_filter_1 -[ 52%] Built target tiledb_array_read_dense_sorted -[ 52%] Built target tiledb_array_read_sparse_1 -[ 52%] Built target tiledb_array_read_dense_1 -[ 67%] Built target GenomicsDB_library_object_files -[ 68%] Built target tiledb_array_read_dense_3 -[ 69%] Built target tiledb_array_update_dense_2 -[ 69%] Built target tiledb_array_update_dense_1 -make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/depend -[ 69%] Built target tiledb_array_read_dense_2 -make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/depend -[ 70%] Built target tiledb_array_read_sparse_2 -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" -[ 71%] Built target tiledb_array_read_sparse_sorted make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" -[ 72%] Built target tiledb_array_read_sparse_filter_2 -[ 72%] Built target tiledb_array_write_sparse_2 -[ 73%] Built target tiledb_array_write_sparse_1 -[ 73%] Built target tiledb_array_write_dense_2 -[ 74%] Built target tiledb_array_write_dense_1 -[ 75%] Built target tiledb_array_update_sparse_2 -[ 75%] Built target tiledb_array_update_sparse_1 -[ 76%] Built target tiledb_array_write_dense_sorted -[ 77%] Built target tiledb_array_write_sparse_3 -[ 78%] Built target tiledb_clear_delete_move -[ 80%] Built target tiledb_metadata_iterator -[ 80%] Built target tiledb_metadata_consolidate -[ 80%] Built target tiledb_metadata_write -[ 80%] Built target tiledb_ls_workspaces -[ 80%] Built target tiledb_array_write_sparse_4 -[ 82%] Built target tiledb_metadata_update -[ 82%] Built target tiledb_catching_errors -[ 83%] Built target tiledb_ls -[ 83%] Built target tiledb_config -[ 83%] Built target tiledb_metadata_create -[ 84%] Built target tiledb_delete -[ 84%] Built target tiledb_metadata_read -[ 85%] Built target tiledb_workspace_group_create -[ 86%] Built target tiledb_metadata_primitive -Dependencies file "src/main/CMakeFiles/tiledbgenomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target tiledbgenomicsdb +make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build +make[4]: Nothing to be done for 'src/main/CMakeFiles/tiledbgenomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/build +Consolidate compiler generated dependencies of target tiledb_workspace_group_create +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build +[ 78%] Built target tiledb_array_write_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'src/main/CMakeFiles/tiledbgenomicsdb.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-1.5.5/obj-x86_64-linux-gnu' +[ 79%] Built target tiledb_catching_errors +[ 80%] Built target tiledb_clear_delete_move +[ 81%] Built target tiledb_ls +[ 82%] Built target tiledb_metadata_consolidate +[ 82%] Built target tiledb_metadata_create +[ 83%] Built target tiledb_metadata_iterator +[ 83%] Built target tiledb_metadata_read +[ 82%] Built target tiledb_ls_workspaces +[ 83%] Built target tiledb_metadata_write +[ 84%] Built target tiledb_workspace_group_create +[ 86%] Built target tiledb_metadata_update +[ 86%] Built target tiledbgenomicsdb +[ 85%] Built target tiledb_metadata_primitive +make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend [ 86%] Built target genomicsdb 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-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/depend -[ 86%] Built target tiledbgenomicsdb make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/depend make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/depend make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" +make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend +make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" -make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" -make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_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-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" -make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend -make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" -make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.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-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" +make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" +cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.5 /build/reproducible-path/genomicsdb-1.5.5/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" +Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". +Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". +Dependencies file 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"/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/build Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". +Dependencies file "tools/CMakeFiles/vcf2genomicsdb_init.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". +Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/create_genomicsdb_workspace.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". -Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". +Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". -Dependencies file "tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". -Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/compiler_depend.internal". +Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". +Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". 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Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". -Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target vcf2genomicsdb -Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target test_genomicsdb_demo -Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target vcf_histogram -Consolidate compiler generated dependencies of target vcfdiff Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target vcf2genomicsdb_init -Consolidate compiler generated dependencies of target test_genomicsdb_bcf_generator -Consolidate compiler generated dependencies of target api_tests -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". -Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". -make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/build -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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". -Consolidate compiler generated dependencies of target gt_mpi_gather -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/build -Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target test_genomicsdb_importer +Dependencies file "tools/CMakeFiles/vcf2genomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/compiler_depend.internal". make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/create_genomicsdb_workspace.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.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-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target genomicsdbjni +Dependencies file "example/CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target gt_mpi_gather +Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". -make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/build Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target vcf_histogram make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/build -make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/build -make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/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 -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/build +Dependencies file "example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'tools/CMakeFiles/consolidate_genomicsdb_array.dir/build'. +make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb_init.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb.dir/build'. +Dependencies file "example/CMakeFiles/test_genomicsdb_importer.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/compiler_depend.internal". +Consolidate compiler generated dependencies of target vcf2genomicsdb make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/build +make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/build +make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/build +Consolidate compiler generated dependencies of target test_genomicsdb_bcf_generator +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/build +Consolidate compiler generated dependencies of target test_genomicsdb_importer +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/compiler_depend.internal". +make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +Dependencies file "tools/CMakeFiles/vcfdiff.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'tools/CMakeFiles/vcfdiff.dir/build'. +make[4]: Nothing to be done for 'tools/CMakeFiles/gt_mpi_gather.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf_histogram.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/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-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb_init.dir/build'. +make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/api_tests.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'tools/CMakeFiles/gt_mpi_gather.dir/build'. +make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdbjni.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -Consolidate compiler generated dependencies of target genomicsdbjni -make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build'. +make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/build +[ 87%] Built target consolidate_genomicsdb_array +Consolidate compiler generated dependencies of target vcfdiff make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/api_tests.dir/build'. +make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/build +[ 87%] Built target create_genomicsdb_workspace make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_importer.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' +make[4]: Nothing to be done for 'tools/CMakeFiles/vcfdiff.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdbjni.dir/build'. +make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' -[ 86%] Built target create_genomicsdb_workspace -[ 87%] Built target consolidate_genomicsdb_array -[ 88%] Built target vcf2genomicsdb -[ 88%] Built target test_genomicsdb_demo -[ 89%] Built target vcfdiff -[ 90%] Built target vcf_histogram -[ 90%] Built target vcf2genomicsdb_init -[ 91%] Built target test_genomicsdb_bcf_generator -[ 92%] Built target api_tests -[ 93%] Built target gt_mpi_gather -[ 94%] Built target test_genomicsdb_importer +[ 88%] Built target api_tests +[ 89%] Built target genomicsdbjni +[ 87%] Built target test_genomicsdb_demo Consolidate compiler generated dependencies of target ctests +[ 90%] Built target vcf2genomicsdb_init +[ 90%] Built target gt_mpi_gather make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build -[ 95%] Built target genomicsdbjni +[ 91%] Built target vcfdiff +[ 92%] Built target vcf_histogram +[ 93%] Built target vcf2genomicsdb +[ 94%] Built target test_genomicsdb_bcf_generator +[ 95%] Built target test_genomicsdb_importer make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/ctests.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' @@ -9560,15 +9596,15 @@ 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),0.0032692619999999998,Cpu time(s),0.003283516 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.0013322490000000002,Cpu time(s),0.001441302 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),6.022E-4,Cpu time(s),7.00428E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.63661E-4,Cpu time(s),4.4376400000000003E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.99684E-4,Cpu time(s),4.72084E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),2.61366E-4,Cpu time(s),2.69077E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),2.4558E-4,Cpu time(s),2.20819E-4 -GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.0622E-4,Cpu time(s),3.74968E-4 -[INFO] Tests run: 46, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.065 s - in TestSuite +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.007736639,Cpu time(s),0.007255402 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.0046706149999999995,Cpu time(s),0.002848105 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),0.001033332,Cpu time(s),8.70937E-4 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),6.31897E-4,Cpu time(s),6.85723E-4 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),8.62552E-4,Cpu time(s),9.06909E-4 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.41059E-4,Cpu time(s),4.55684E-4 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),4.37615E-4,Cpu time(s),4.49585E-4 +GENOMICSDB_TIMER,GenomicsDB iterator next() timer,Wall-clock time(s),8.694600000000001E-4,Cpu time(s),7.209429999999999E-4 +[INFO] Tests run: 46, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 36.52 s - in TestSuite [INFO] [INFO] Results: [INFO] @@ -9577,8 +9613,8 @@ [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ -[INFO] Total time: 40.775 s -[INFO] Finished at: 2025-10-30T22:44:51-12:00 +[INFO] Total time: 01:39 min +[INFO] Finished at: 2026-12-04T07:32:13+14:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' create-stamp debian/debhelper-build-stamp @@ -9607,15 +9643,15 @@ [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ -[INFO] Total time: 0.438 s -[INFO] Finished at: 2025-10-30T22:44:53-12:00 +[INFO] Total time: 2.609 s +[INFO] Finished at: 2026-12-04T07:32:25+14:00 [INFO] ------------------------------------------------------------------------ mh_resolve_dependencies --non-interactive --offline --build -plibgenomicsdb-java --base-directory=/build/reproducible-path/genomicsdb-1.5.5 --non-explore Analysing pom.xml... mh_unpatchpoms -plibgenomicsdb-java make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' dh_auto_install -O--buildsystem=cmake -Nlibgenomicsdb-java - cd obj-x86_64-linux-gnu && make -j40 install DESTDIR=/build/reproducible-path/genomicsdb-1.5.5/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" + cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/genomicsdb-1.5.5/debian/tmp AM_UPDATE_INFO_DIR=no INSTALL="install --strip-program=true" make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.5 -B/build/reproducible-path/genomicsdb-1.5.5/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall @@ -9627,33 +9663,33 @@ -- Install configuration: "None" -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-hts.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/klist.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hfile.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/ksort.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/thread_pool.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_defs.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kfunc.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/khash.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/klist.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcfutils.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_log.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf_sweep.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/faidx.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/synced_bcf_reader.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kseq.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kbitset.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_endian.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/knetfile.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/cram.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kroundup.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcfutils.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_defs.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/tbx.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kfunc.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/cram.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/faidx.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_log.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/sam.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_endian.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kstring.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf_sweep.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hfile.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/khash_str2int.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/regidx.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/bgzf.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/ksort.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/vcf.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_os.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kseq.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kstring.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/khash_str2int.h --- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/thread_pool.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/sam.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/kbitset.h +-- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/htslib/hts_os.h -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-tiledb.a -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/lib/x86_64-linux-gnu/genomicsdb/libgenomicsdb-tiledb.so -- Installing: /build/reproducible-path/genomicsdb-1.5.5/debian/tmp/usr/include/genomicsdb/tiledb/tiledb.h @@ -9700,7 +9736,7 @@ /build/reproducible-path/genomicsdb-1.5.5/debian/libgenomicsdb-jni/usr/lib/jni/libgenomicsdbjni.so: new RUNPATH: /usr/lib/x86_64-linux-gnu/genomicsdb make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.5' jh_installjavadoc -O--buildsystem=cmake -Duplicate specification "A" for option "A" +Duplicate specification "author|A=s" for option "A" dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake dh_installexamples -O--buildsystem=cmake @@ -9713,7 +9749,7 @@ jh_classpath -O--buildsystem=cmake Duplicate specification "version|V" for option "V" jh_manifest -O--buildsystem=cmake -Duplicate specification "V:s" for option "V" +Duplicate specification "version|V" for option "V" jh_exec -O--buildsystem=cmake jh_depends -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake @@ -9739,34 +9775,34 @@ 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 exp: it's probably a plugin +dpkg-shlibdeps: warning: 14 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib64/ld-linux-x86-64.so.2 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib64/ld-linux-x86-64.so.2.usr-is-merged -dpkg-shlibdeps: warning: can't extract name and version from library name 'libgenomicsdb-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 log: 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: 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_1.5.5-2_all.deb'. -dpkg-deb: building package 'libgenomicsdb-jni-dbgsym' in '../libgenomicsdb-jni-dbgsym_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb-jni' in '../libgenomicsdb-jni_1.5.5-2_amd64.deb'. +dpkg-deb: building package 'libgenomicsdb-jni-dbgsym' in '../libgenomicsdb-jni-dbgsym_1.5.5-2_amd64.deb'. dpkg-deb: building package 'genomicsdb-tools' in '../genomicsdb-tools_1.5.5-2_amd64.deb'. -dpkg-deb: building package 'genomicsdb-tools-dbgsym' in '../genomicsdb-tools-dbgsym_1.5.5-2_amd64.deb'. -dpkg-deb: building package 'libgenomicsdb1' in '../libgenomicsdb1_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb1-dbgsym' in '../libgenomicsdb1-dbgsym_1.5.5-2_amd64.deb'. +dpkg-deb: building package 'libgenomicsdb1' in '../libgenomicsdb1_1.5.5-2_amd64.deb'. +dpkg-deb: building package 'libgenomicsdb-java' in '../libgenomicsdb-java_1.5.5-2_all.deb'. +dpkg-deb: building package 'genomicsdb-tools-dbgsym' in '../genomicsdb-tools-dbgsym_1.5.5-2_amd64.deb'. dpkg-deb: building package 'libgenomicsdb-dev' in '../libgenomicsdb-dev_1.5.5-2_amd64.deb'. dpkg-genbuildinfo --build=binary -O../genomicsdb_1.5.5-2_amd64.buildinfo dpkg-genchanges --build=binary -O../genomicsdb_1.5.5-2_amd64.changes @@ -9775,12 +9811,14 @@ 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/25376/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/25376/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/4101407 and its subdirectories -I: Current time: Thu Oct 30 22:46:12 -12 2025 -I: pbuilder-time-stamp: 1761907572 +I: removing directory /srv/workspace/pbuilder/25376 and its subdirectories +I: Current time: Fri Dec 4 07:38:34 +14 2026 +I: pbuilder-time-stamp: 1796319514 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/amd64/genomicsdb_1.5.5-2.diff: 95.8% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/amd64/genomicsdb_1.5.5-2.diff.gz b2/build.log: 93.1% -- replaced with stdout Compressing the 1st log... b1/build.log: 93.1% -- replaced with stdout Fri Oct 31 11:15:37 UTC 2025 I: diffoscope 306 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_genomicsdb_forky_amd64_1761909337 + touch /var/log/reproducible-builds/diffoscope_stamp_genomicsdb_forky_amd64_1761909337 + RESULT=0 + systemd-run '--description=diffoscope on genomicsdb/1.5.5-2 in forky/amd64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-amd64_29-58968 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz --run-session -c jenkins-reproducible-forky-diffoscope-e8b8316d-22aa-4a88-8388-09d1a779a797 -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/dbd-tmp-nTatB3Q ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/genomicsdb_1.5.5-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/genomicsdb_1.5.5-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/genomicsdb_1.5.5-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b1/genomicsdb_1.5.5-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b2/genomicsdb_1.5.5-2_amd64.changes' + false + set +x Running as unit: rb-diffoscope-amd64_29-58968.service; invocation ID: e573198859da41f0a3dbab3ac85a432a # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/genomicsdb_1.5.5-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/genomicsdb_1.5.5-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/genomicsdb_1.5.5-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b1/genomicsdb_1.5.5-2_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.WjSuggWz/b2/genomicsdb_1.5.5-2_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 217ms CPU time consumed: 177ms Memory peak: 18M (swap: 0B) _ _ _ __ _ ___ _ __ ___ _ __ ___ (_) ___ ___ __| | |__ / _` |/ _ \ '_ \ / _ \| '_ ` _ \| |/ __/ __|/ _` | '_ \ | (_| | __/ | | | (_) | | | | | | | (__\__ \ (_| | |_) | \__, |\___|_| |_|\___/|_| |_| |_|_|\___|___/\__,_|_.__/ |___/ Fri Oct 31 11:15:38 UTC 2025 I: diffoscope 306 found no differences in the changes files, and a .buildinfo file also exists. Fri Oct 31 11:15:38 UTC 2025 I: genomicsdb from forky built successfully and reproducibly on amd64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-10-31 11:15:39] INFO: Starting at 2025-10-31 11:15:39.328047 [2025-10-31 11:15:39] INFO: Generating the pages of 1 package(s) [2025-10-31 11:15:39] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/genomicsdb_1.5.5-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/genomicsdb_1.5.5-2.diff.gz is missing [2025-10-31 11:15:39] CRITICAL: https://tests.reproducible-builds.org/debian/forky/amd64/genomicsdb didn't produce a buildlog, even though it has been built. [2025-10-31 11:15:39] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/forky/arm64/genomicsdb_1.5.5-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/arm64/genomicsdb_1.5.5-2.diff.gz is missing [2025-10-31 11:15:39] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/arm64/genomicsdb_1.4.4-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/arm64/genomicsdb_1.4.4-3.diff.gz is missing [2025-10-31 11:15:39] INFO: Finished at 2025-10-31 11:15:39.576447, took: 0:00:00.248403 Fri Oct 31 11:15:39 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/forky/amd64/genomicsdb.html Fri Oct 31 11:15:39 UTC 2025 I: Removing signed genomicsdb_1.5.5-2_amd64.buildinfo.asc files: removed './b1/genomicsdb_1.5.5-2_amd64.buildinfo.asc' removed './b2/genomicsdb_1.5.5-2_amd64.buildinfo.asc' 1761909339 amd64 forky genomicsdb Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/amd64/genomicsdb_1.5.5-2.rbuild.log: 92.9% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/forky/amd64/genomicsdb_1.5.5-2.rbuild.log.gz [2025-10-31 11:15:39] INFO: Starting at 2025-10-31 11:15:39.936918 [2025-10-31 11:15:40] INFO: Generating the pages of 1 package(s) [2025-10-31 11:15:40] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/genomicsdb_1.5.5-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/genomicsdb_1.5.5-2.diff.gz is missing [2025-10-31 11:15:40] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/forky/arm64/genomicsdb_1.5.5-2.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/forky/arm64/genomicsdb_1.5.5-2.diff.gz is missing [2025-10-31 11:15:40] ERROR: Either /var/lib/jenkins/userContent/reproducible/debian/logs/bookworm/arm64/genomicsdb_1.4.4-3.build2.log.gz or /var/lib/jenkins/userContent/reproducible/debian/logdiffs/bookworm/arm64/genomicsdb_1.4.4-3.diff.gz is missing [2025-10-31 11:15:40] INFO: Finished at 2025-10-31 11:15:40.176867, took: 0:00:00.239952 All cleanup done. Fri Oct 31 11:15:40 UTC 2025 - total duration: 0h 36m 6s. Fri Oct 31 11:15:40 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-1YGJsb0a, removing. Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 36min 7.520s CPU time consumed: 6.082s Memory peak: 350.5M (swap: 0B)