Thu Jan 23 17:11:30 UTC 2025 I: starting to build genomicsdb/unstable/arm64 on jenkins on '2025-01-23 17:11' Thu Jan 23 17:11:30 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_4/54530/console.log Thu Jan 23 17:11:30 UTC 2025 I: Downloading source for unstable/genomicsdb=1.5.4-4 --2025-01-23 17:11:30-- http://deb.debian.org/debian/pool/main/g/genomicsdb/genomicsdb_1.5.4-4.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 3408 (3.3K) [text/prs.lines.tag] Saving to: ‘genomicsdb_1.5.4-4.dsc’ 0K ... 100% 350M=0s 2025-01-23 17:11:30 (350 MB/s) - ‘genomicsdb_1.5.4-4.dsc’ saved [3408/3408] Thu Jan 23 17:11:30 UTC 2025 I: genomicsdb_1.5.4-4.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: 1.5.4-4 Maintainer: Debian Med Packaging Team Uploaders: Pierre Gruet Homepage: https://www.genomicsdb.org/ Standards-Version: 4.7.0 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_1.5.4.orig-genomicsdb-htslib.tar.gz 4b97fcabb736febbcd00d8eadca8360b6014eb5f 946342 genomicsdb_1.5.4.orig-genomicsdb-tiledb.tar.gz eb7819a8ee6920332282de1f9a00436244b1e6eb 6765134 genomicsdb_1.5.4.orig.tar.gz d2674a1ee1218d7414a01f4a0523a4df3b7e4cee 29296 genomicsdb_1.5.4-4.debian.tar.xz Checksums-Sha256: 32483d1b3a37559e0f328af27a8ec67197606899796dd4e580612bd6f32cd9f3 1515241 genomicsdb_1.5.4.orig-genomicsdb-htslib.tar.gz 13bfe1f76bbc7bbb76dc10f9080c6cb30839cf21af2b3f7eaf96b19d126c6dfc 946342 genomicsdb_1.5.4.orig-genomicsdb-tiledb.tar.gz bd77c0aa9956ef4970c1eabfe285019dc90c3840950d1838339b3e5b0fb30acd 6765134 genomicsdb_1.5.4.orig.tar.gz 7fed5aa6006e6c2cca6f3bcf56ce811b4a0b34364d5949e6f84738109245c66d 29296 genomicsdb_1.5.4-4.debian.tar.xz Files: 89a7133f35d70b5520d583c93b9cbe94 1515241 genomicsdb_1.5.4.orig-genomicsdb-htslib.tar.gz d48d3186c8c0cb60c8a6462b5f69600a 946342 genomicsdb_1.5.4.orig-genomicsdb-tiledb.tar.gz 9baa14111448d01e3df5084c2191b3ac 6765134 genomicsdb_1.5.4.orig.tar.gz 6151c9f99ec0d29975ec91b7eba61aae 29296 genomicsdb_1.5.4-4.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmdyliYACgkQYAMWptwn dHZqDw/8DxN0iqCVifq1J2SLuISHXn/Z/KCqgZnvuhUuXcsP8fZ6+9QWJmacqgGR PIzKrOysHmnQ+HJYefD9en4iUe8/7r59hS7T91thPWqYKTvcG9bG9ncsvHjRQcbf W1e1WO4aSBbQxqdJ2JGRBNoNUDvS767Ktj+CuRxZN2URmpp00lvfHu5M6zBz+KpQ fs5s43RiGp0Bm2Q3OtmQt9NFpy6a76xjE9dOQeUh2Ap8+A57sPYxX84VxlxMivcq zIvjF0nsPzCQB3x1UleA/+7Z5YOl+QWHH7TCQhC1l7ODAZuV364JaIOcUoR6HfeK 4T+bmHIaLRnO2EcU4ImtrPH0UDh0NVo5xL9ZoaYFC3Y8WOEwRCw84jeK3TIY+YY+ Kqw38pJw/Krgyeax4W2XAd5Y/9omPmGTjnNI0IrwNvYT//gTlJoptqc47lZmqyKS Wf4b1F/Ggr0MsDNj03VF5/o1i8pwcdPNHHyUVZcYATNmCg145LJYjkb4YI29o4Ew DEbMvjWULUCF+seXnWZjLIqgEFzPNmruvsZ2mGx7VTFlgq7b23kAHQObpWuEAFUR J1KahzwaFP9rmGlseJfZDReldBVDmXBuOg9KtFYoCkwXwFQWOwZYAfZzgOoT38Uv sIFfU7JOpyuarWiwXVPPGkPnBeAJ4/cYC9/5ypSH4lDNwxkaHeM= =zzRk -----END PGP SIGNATURE----- Thu Jan 23 17:11:30 UTC 2025 I: Checking whether the package is not for us Thu Jan 23 17:11:30 UTC 2025 I: Starting 1st build on remote node codethink03-arm64.debian.net. Thu Jan 23 17:11:30 UTC 2025 I: Preparing to do remote build '1' on codethink03-arm64.debian.net. Thu Jan 23 17:15:39 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Feb 25 11:34:33 -12 2026 I: pbuilder-time-stamp: 1772062473 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-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_1.5.4-4.dsc] I: copying [./genomicsdb_1.5.4.orig-genomicsdb-htslib.tar.gz] I: copying [./genomicsdb_1.5.4.orig-genomicsdb-tiledb.tar.gz] I: copying [./genomicsdb_1.5.4.orig.tar.gz] I: copying [./genomicsdb_1.5.4-4.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./genomicsdb_1.5.4-4.dsc: unsupported subcommand dpkg-source: info: extracting genomicsdb in genomicsdb-1.5.4 dpkg-source: info: unpacking genomicsdb_1.5.4.orig.tar.gz dpkg-source: info: unpacking genomicsdb_1.5.4.orig-genomicsdb-htslib.tar.gz dpkg-source: info: unpacking genomicsdb_1.5.4.orig-genomicsdb-tiledb.tar.gz dpkg-source: info: unpacking genomicsdb_1.5.4-4.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/480185/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='f0a9779a9b8f4c9893a7f54bc27fe7e8' 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='480185' 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.g2sk96Wh/pbuilderrc_Snzf --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.g2sk96Wh/b1 --logfile b1/build.log genomicsdb_1.5.4-4.dsc' SUDO_GID='109' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink03-arm64 6.1.0-30-cloud-arm64 #1 SMP Debian 6.1.124-1 (2025-01-12) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/480185/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: arm64 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 ... 19946 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} dirmngr{a} docutils-common{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-14{a} gfortran-14-aarch64-linux-gnu{a} gnupg{a} gnupg-l10n{a} gpg{a} gpg-agent{a} gpgconf{a} gpgsm{a} gpgv{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-radeon1{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-14-dev{a} libgfortran5{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{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} libicu72{a} libidn2-0{a} libidn2-dev{a} libimport-into-perl{a} libio-html-perl{a} libio-pty-perl{a} libio-socket-ssl-perl{a} libipc-run-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} libjs-sphinxdoc{a} libjs-underscore{a} libjson-java{a} libjson-perl{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-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} libngs-java{a} libngs-jni{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} libpmix-dev{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} 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} libwayland-server0{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{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} 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} python-babel-localedata{a} python3{a} python3-alabaster{a} python3-autocommand{a} python3-babel{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-defusedxml{a} python3-docutils{a} python3-idna{a} python3-imagesize{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jinja2{a} python3-markupsafe{a} python3-minimal{a} python3-more-itertools{a} python3-packaging{a} python3-pkg-resources{a} python3-pygments{a} python3-requests{a} python3-roman{a} python3-snowballstemmer{a} python3-sphinx{a} python3-typeguard{a} python3-typing-extensions{a} python3-urllib3{a} python3.13{a} python3.13-minimal{a} rapidjson-dev{a} readline-common{a} sensible-utils{a} sgml-base{a} shared-mime-info{a} sopv-gpgv{a} sphinx-common{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} xml-core{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 dput dput-ng dupload equivs fonts-dejavu-extra gnupg-utils gpg-wks-client javascript-common krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libcoarrays-openmpi-dev libdata-dump-perl libdistro-info-perl libgdk-pixbuf2.0-bin libgit-wrapper-perl 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-xs-perl libkmod2 libldap-common liblist-compare-perl libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libnss-systemd libpaper-utils librsvg2-common libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libtasn1-doc libxstring-perl libxt-dev libyaml-snake-java licensecheck lintian linux-sysctl-defaults lynx mesa-vulkan-drivers ntpsec openntpd pristine-tar psmisc publicsuffix python3-apt python3-argcomplete python3-debian python3-magic python3-pil python3-unidiff python3-xdg strace systemd-cryptsetup systemd-timesyncd wget xauth xdg-user-dirs 0 packages upgraded, 532 newly installed, 0 to remove and 0 not upgraded. Need to get 388 MB of archives. After unpacking 1334 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libsystemd-shared arm64 257.2-2 [1907 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libapparmor1 arm64 3.1.7-1+b3 [41.8 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 systemd arm64 257.2-2 [2922 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 systemd-sysv arm64 257.2-2 [60.8 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 libdbus-1-3 arm64 1.16.0-1 [168 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 dbus-bin arm64 1.16.0-1 [77.7 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 dbus-session-bus-common all 1.16.0-1 [51.1 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.6.4-1 [90.7 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 dbus-daemon arm64 1.16.0-1 [150 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 dbus-system-bus-common all 1.16.0-1 [52.2 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 dbus arm64 1.16.0-1 [69.4 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 binfmt-support arm64 2.2.2-7+b1 [68.2 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 libpython3.13-minimal arm64 3.13.1-3 [852 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 python3.13-minimal arm64 3.13.1-3 [1990 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.13.1-2 [27.0 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 media-types all 10.1.0 [26.9 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 netbase all 6.4 [12.8 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 tzdata all 2025a-1 [259 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.4.6-1 [20.9 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.2-6 [69.4 kB] Get: 22 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-6 [159 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 libpython3.13-stdlib arm64 3.13.1-3 [1912 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 python3.13 arm64 3.13.1-3 [740 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.13.1-2 [9952 B] Get: 26 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.13.1-2 [28.0 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 sgml-base all 1.31 [15.4 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 libproc2-0 arm64 2:4.0.4-6 [62.3 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 procps arm64 2:4.0.4-6 [872 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 openssl arm64 3.4.0-2 [1385 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 ca-certificates all 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unstable/main arm64 libcbor0.10 arm64 0.10.2-2 [27.4 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 libfido2-1 arm64 1.15.0-1+b1 [74.3 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-4 [32.2 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2-1 [23.9 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-4 [81.5 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-4 [9352 B] Get: 49 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-4 [308 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-4 [127 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 openssh-client arm64 1:9.9p1-3 [928 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-2 [311 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 libglib2.0-0t64 arm64 2.82.4-2 [1413 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-6 [9239 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [630 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 shared-mime-info arm64 2.4-5+b2 [756 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo arm64 1:2.1.5-3+b1 [173 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 libpng16-16t64 arm64 1.6.45-1 [273 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 libdeflate0 arm64 1.23-1+b1 [42.5 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB] Get: 62 http://deb.debian.org/debian unstable/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 libtiff6 arm64 4.5.1+git230720-5 [309 kB] Get: 65 http://deb.debian.org/debian unstable/main arm64 libgdk-pixbuf-2.0-0 arm64 2.42.12+dfsg-2 [131 kB] Get: 66 http://deb.debian.org/debian unstable/main arm64 gtk-update-icon-cache arm64 4.16.12+ds-1 [50.2 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 hicolor-icon-theme all 0.18-2 [11.8 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 adwaita-icon-theme all 47.0-2 [463 kB] Get: 69 http://deb.debian.org/debian unstable/main arm64 ca-certificates-java all 20240118 [11.6 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 java-common all 0.76 [6776 B] Get: 71 http://deb.debian.org/debian unstable/main arm64 liblcms2-2 arm64 2.16-2 [151 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 libnspr4 arm64 2:4.36-1 [102 kB] Get: 73 http://deb.debian.org/debian unstable/main arm64 libnss3 arm64 2:3.107-1 [1289 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 libpcsclite1 arm64 2.3.1-1 [55.3 kB] Get: 75 http://deb.debian.org/debian unstable/main arm64 openjdk-21-jre-headless arm64 21.0.6+7-1 [40.6 MB] Get: 76 http://deb.debian.org/debian unstable/main arm64 default-jre-headless arm64 2:1.21-76 [3192 B] Get: 77 http://deb.debian.org/debian unstable/main arm64 ant all 1.10.15-1 [2163 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 at-spi2-common all 2.55.0.1-1 [170 kB] Get: 79 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-5 [284 kB] Get: 80 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3 [493 kB] Get: 81 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 82 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 83 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.1-1 [770 kB] Get: 84 http://deb.debian.org/debian unstable/main arm64 chrpath arm64 0.18-1 [13.2 kB] Get: 85 http://deb.debian.org/debian unstable/main arm64 cmake-data all 3.31.4-2 [2267 kB] Get: 86 http://deb.debian.org/debian unstable/main arm64 libarchive13t64 arm64 3.7.4-1.1 [323 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b6 [297 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-1 [449 kB] Get: 89 http://deb.debian.org/debian unstable/main arm64 libidn2-0 arm64 2.3.7-2+b1 [127 kB] Get: 90 http://deb.debian.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-8+b1 [20.3 kB] Get: 91 http://deb.debian.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-8+b1 [55.7 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 libldap2 arm64 2.6.9+dfsg-1 [179 kB] Get: 93 http://deb.debian.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1 [71.3 kB] Get: 94 http://deb.debian.org/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 95 http://deb.debian.org/debian unstable/main arm64 libp11-kit0 arm64 0.25.5-3 [409 kB] Get: 96 http://deb.debian.org/debian unstable/main arm64 libtasn1-6 arm64 4.19.0-3+b3 [46.9 kB] Get: 97 http://deb.debian.org/debian unstable/main arm64 libgnutls30t64 arm64 3.8.8-2 [1363 kB] Get: 98 http://deb.debian.org/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b5 [56.8 kB] Get: 99 http://deb.debian.org/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 100 http://deb.debian.org/debian unstable/main arm64 libcurl4t64 arm64 8.11.1-1+b1 [324 kB] Get: 101 http://deb.debian.org/debian unstable/main arm64 libjsoncpp26 arm64 1.9.6-3 [72.9 kB] Get: 102 http://deb.debian.org/debian unstable/main arm64 librhash1 arm64 1.4.5-1 [129 kB] Get: 103 http://deb.debian.org/debian unstable/main arm64 libuv1t64 arm64 1.48.0-7 [143 kB] Get: 104 http://deb.debian.org/debian unstable/main arm64 cmake arm64 3.31.4-2 [9898 kB] Get: 105 http://deb.debian.org/debian unstable/main arm64 comerr-dev arm64 2.1-1.47.2-1 [55.9 kB] Get: 106 http://deb.debian.org/debian unstable/main arm64 dbus-user-session arm64 1.16.0-1 [51.0 kB] Get: 107 http://deb.debian.org/debian unstable/main arm64 libdconf1 arm64 0.40.0-5 [40.4 kB] Get: 108 http://deb.debian.org/debian unstable/main arm64 dconf-service arm64 0.40.0-5 [30.9 kB] Get: 109 http://deb.debian.org/debian unstable/main arm64 dconf-gsettings-backend arm64 0.40.0-5 [27.3 kB] Get: 110 http://deb.debian.org/debian unstable/main arm64 dctrl-tools arm64 2.24-3+b1 [125 kB] Get: 111 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.24.1 [90.9 kB] Get: 112 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-2 [539 kB] Get: 113 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 114 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 115 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.1-1 [19.6 kB] Get: 116 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.1-1 [8584 B] Get: 117 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 118 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 119 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.1-1 [1610 kB] Get: 120 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 121 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 122 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.24.1 [920 kB] Get: 123 http://deb.debian.org/debian unstable/main arm64 libatk1.0-0t64 arm64 2.55.0.1-1 [49.7 kB] Get: 124 http://deb.debian.org/debian unstable/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 125 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Get: 126 http://deb.debian.org/debian unstable/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 127 http://deb.debian.org/debian unstable/main arm64 libx11-data all 2:1.8.10-2 [337 kB] Get: 128 http://deb.debian.org/debian unstable/main arm64 libx11-6 arm64 2:1.8.10-2 [789 kB] Get: 129 http://deb.debian.org/debian unstable/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB] Get: 130 http://deb.debian.org/debian unstable/main arm64 libxi6 arm64 2:1.8.2-1 [77.8 kB] Get: 131 http://deb.debian.org/debian unstable/main arm64 libatspi2.0-0t64 arm64 2.55.0.1-1 [73.2 kB] Get: 132 http://deb.debian.org/debian unstable/main arm64 libatk-bridge2.0-0t64 arm64 2.55.0.1-1 [64.4 kB] Get: 133 http://deb.debian.org/debian unstable/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 134 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 135 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 136 http://deb.debian.org/debian unstable/main arm64 fontconfig-config arm64 2.15.0-2 [317 kB] Get: 137 http://deb.debian.org/debian unstable/main arm64 libfontconfig1 arm64 2.15.0-2 [386 kB] Get: 138 http://deb.debian.org/debian unstable/main arm64 libpixman-1-0 arm64 0.44.0-3 [168 kB] Get: 139 http://deb.debian.org/debian unstable/main arm64 libxcb-render0 arm64 1.17.0-2+b1 [115 kB] Get: 140 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0 arm64 1.17.0-2+b1 [105 kB] Get: 141 http://deb.debian.org/debian unstable/main arm64 libxrender1 arm64 1:0.9.10-1.1+b3 [27.2 kB] Get: 142 http://deb.debian.org/debian unstable/main arm64 libcairo2 arm64 1.18.2-2 [483 kB] Get: 143 http://deb.debian.org/debian unstable/main arm64 libcairo-gobject2 arm64 1.18.2-2 [130 kB] Get: 144 http://deb.debian.org/debian unstable/main arm64 libcloudproviders0 arm64 0.3.6-1+b1 [27.7 kB] Get: 145 http://deb.debian.org/debian unstable/main arm64 libcolord2 arm64 1.4.7-1+b2 [130 kB] Get: 146 http://deb.debian.org/debian unstable/main arm64 libavahi-common-data arm64 0.8-16 [112 kB] Get: 147 http://deb.debian.org/debian unstable/main arm64 libavahi-common3 arm64 0.8-16 [43.3 kB] Get: 148 http://deb.debian.org/debian unstable/main arm64 libavahi-client3 arm64 0.8-16 [46.7 kB] Get: 149 http://deb.debian.org/debian unstable/main arm64 libcups2t64 arm64 2.4.10-2+b1 [236 kB] Get: 150 http://deb.debian.org/debian unstable/main arm64 libepoxy0 arm64 1.5.10-2 [200 kB] Get: 151 http://deb.debian.org/debian unstable/main arm64 libfribidi0 arm64 1.0.16-1 [26.5 kB] Get: 152 http://deb.debian.org/debian unstable/main arm64 libgraphite2-3 arm64 1.3.14-2+b1 [70.4 kB] Get: 153 http://deb.debian.org/debian unstable/main arm64 libharfbuzz0b arm64 10.2.0-1 [443 kB] Get: 154 http://deb.debian.org/debian unstable/main arm64 fontconfig arm64 2.15.0-2 [462 kB] Get: 155 http://deb.debian.org/debian unstable/main arm64 libthai-data all 0.1.29-2 [168 kB] Get: 156 http://deb.debian.org/debian unstable/main arm64 libdatrie1 arm64 0.2.13-3+b1 [37.6 kB] Get: 157 http://deb.debian.org/debian unstable/main arm64 libthai0 arm64 0.1.29-2+b1 [48.4 kB] Get: 158 http://deb.debian.org/debian unstable/main arm64 libpango-1.0-0 arm64 1.56.1-1 [213 kB] Get: 159 http://deb.debian.org/debian unstable/main arm64 libpangoft2-1.0-0 arm64 1.56.1-1 [52.8 kB] Get: 160 http://deb.debian.org/debian unstable/main arm64 libpangocairo-1.0-0 arm64 1.56.1-1 [33.8 kB] Get: 161 http://deb.debian.org/debian unstable/main arm64 libwayland-client0 arm64 1.23.0-1+b1 [26.0 kB] Get: 162 http://deb.debian.org/debian unstable/main arm64 libwayland-cursor0 arm64 1.23.0-1+b1 [11.5 kB] Get: 163 http://deb.debian.org/debian unstable/main arm64 libwayland-egl1 arm64 1.23.0-1+b1 [5768 B] Get: 164 http://deb.debian.org/debian unstable/main arm64 libxcomposite1 arm64 1:0.4.6-1 [16.4 kB] Get: 165 http://deb.debian.org/debian unstable/main arm64 libxfixes3 arm64 1:6.0.0-2+b3 [20.4 kB] Get: 166 http://deb.debian.org/debian unstable/main arm64 libxcursor1 arm64 1:1.2.3-1 [39.3 kB] Get: 167 http://deb.debian.org/debian unstable/main arm64 libxdamage1 arm64 1:1.1.6-1+b2 [15.6 kB] Get: 168 http://deb.debian.org/debian unstable/main arm64 libxinerama1 arm64 2:1.1.4-3+b3 [16.1 kB] Get: 169 http://deb.debian.org/debian unstable/main arm64 xkb-data all 2.42-1 [790 kB] Get: 170 http://deb.debian.org/debian unstable/main arm64 libxkbcommon0 arm64 1.7.0-2 [106 kB] Get: 171 http://deb.debian.org/debian unstable/main arm64 libxrandr2 arm64 2:1.5.4-1+b2 [36.0 kB] Get: 172 http://deb.debian.org/debian unstable/main arm64 libgtk-3-common all 3.24.43-5 [4655 kB] Get: 173 http://deb.debian.org/debian unstable/main arm64 libgtk-3-0t64 arm64 3.24.43-5 [2551 kB] Get: 174 http://deb.debian.org/debian unstable/main arm64 libglvnd0 arm64 1.7.0-1+b2 [41.6 kB] Get: 175 http://deb.debian.org/debian unstable/main arm64 libdrm-common all 2.4.123-1 [8084 B] Get: 176 http://deb.debian.org/debian unstable/main arm64 libdrm2 arm64 2.4.123-1 [38.0 kB] Get: 177 http://deb.debian.org/debian unstable/main arm64 libglapi-mesa arm64 24.3.3-1 [47.9 kB] Get: 178 http://deb.debian.org/debian unstable/main arm64 libx11-xcb1 arm64 2:1.8.10-2 [241 kB] Get: 179 http://deb.debian.org/debian unstable/main arm64 libxcb-dri3-0 arm64 1.17.0-2+b1 [107 kB] Get: 180 http://deb.debian.org/debian unstable/main arm64 libxcb-glx0 arm64 1.17.0-2+b1 [123 kB] Get: 181 http://deb.debian.org/debian unstable/main arm64 libxcb-present0 arm64 1.17.0-2+b1 [106 kB] Get: 182 http://deb.debian.org/debian unstable/main arm64 libxcb-xfixes0 arm64 1.17.0-2+b1 [110 kB] Get: 183 http://deb.debian.org/debian unstable/main arm64 libxxf86vm1 arm64 1:1.1.4-1+b4 [19.2 kB] Get: 184 http://deb.debian.org/debian unstable/main arm64 libdrm-amdgpu1 arm64 2.4.123-1 [21.6 kB] Get: 185 http://deb.debian.org/debian unstable/main arm64 libdrm-radeon1 arm64 2.4.123-1 [21.3 kB] Get: 186 http://deb.debian.org/debian unstable/main arm64 libz3-4 arm64 4.13.3-1 [7507 kB] Get: 187 http://deb.debian.org/debian unstable/main arm64 libllvm19 arm64 1:19.1.7-1 [23.3 MB] Get: 188 http://deb.debian.org/debian unstable/main arm64 libsensors-config all 1:3.6.0-10 [14.6 kB] Get: 189 http://deb.debian.org/debian unstable/main arm64 libsensors5 arm64 1:3.6.0-10+b1 [34.3 kB] Get: 190 http://deb.debian.org/debian unstable/main arm64 libxcb-randr0 arm64 1.17.0-2+b1 [117 kB] Get: 191 http://deb.debian.org/debian unstable/main arm64 libxcb-sync1 arm64 1.17.0-2+b1 [109 kB] Get: 192 http://deb.debian.org/debian unstable/main arm64 libxshmfence1 arm64 1.3-1+b3 [9104 B] Get: 193 http://deb.debian.org/debian unstable/main arm64 mesa-libgallium arm64 24.3.3-1 [7904 kB] Get: 194 http://deb.debian.org/debian unstable/main arm64 libvulkan1 arm64 1.4.304.0-1 [126 kB] Get: 195 http://deb.debian.org/debian unstable/main arm64 libwayland-server0 arm64 1.23.0-1+b1 [33.4 kB] Get: 196 http://deb.debian.org/debian unstable/main arm64 libgbm1 arm64 24.3.3-1 [42.9 kB] Get: 197 http://deb.debian.org/debian unstable/main arm64 libgl1-mesa-dri arm64 24.3.3-1 [44.6 kB] Get: 198 http://deb.debian.org/debian unstable/main arm64 libglx-mesa0 arm64 24.3.3-1 [142 kB] Get: 199 http://deb.debian.org/debian unstable/main arm64 libglx0 arm64 1.7.0-1+b2 [31.1 kB] Get: 200 http://deb.debian.org/debian unstable/main arm64 libgl1 arm64 1.7.0-1+b2 [90.9 kB] Get: 201 http://deb.debian.org/debian unstable/main arm64 libasound2-data all 1.2.13-1 [21.1 kB] Get: 202 http://deb.debian.org/debian unstable/main arm64 libasound2t64 arm64 1.2.13-1+b1 [338 kB] Get: 203 http://deb.debian.org/debian unstable/main arm64 libgif7 arm64 5.2.2-1+b1 [44.2 kB] Get: 204 http://deb.debian.org/debian unstable/main arm64 x11-common all 1:7.7+23.2 [216 kB] Get: 205 http://deb.debian.org/debian unstable/main arm64 libxtst6 arm64 2:1.2.5-1 [25.7 kB] Get: 206 http://deb.debian.org/debian unstable/main arm64 openjdk-21-jre arm64 21.0.6+7-1 [193 kB] Get: 207 http://deb.debian.org/debian unstable/main arm64 default-jre arm64 2:1.21-76 [1068 B] Get: 208 http://deb.debian.org/debian unstable/main arm64 openjdk-21-jdk-headless arm64 21.0.6+7-1 [81.9 MB] Get: 209 http://deb.debian.org/debian unstable/main arm64 default-jdk-headless arm64 2:1.21-76 [1124 B] Get: 210 http://deb.debian.org/debian unstable/main arm64 openjdk-21-jdk arm64 21.0.6+7-1 [3438 kB] Get: 211 http://deb.debian.org/debian unstable/main arm64 default-jdk arm64 2:1.21-76 [1076 B] Get: 212 http://deb.debian.org/debian unstable/main arm64 libgpg-error0 arm64 1.51-3 [78.5 kB] Get: 213 http://deb.debian.org/debian unstable/main arm64 libassuan9 arm64 3.0.1-2 [58.1 kB] Get: 214 http://deb.debian.org/debian unstable/main arm64 libgcrypt20 arm64 1.11.0-7 [742 kB] Get: 215 http://deb.debian.org/debian unstable/main arm64 gpgconf arm64 2.2.46-1+b1 [115 kB] Get: 216 http://deb.debian.org/debian unstable/main arm64 libksba8 arm64 1.6.7-2+b1 [125 kB] Get: 217 http://deb.debian.org/debian unstable/main arm64 libnpth0t64 arm64 1.8-2 [22.8 kB] Get: 218 http://deb.debian.org/debian unstable/main arm64 dirmngr arm64 2.2.46-1+b1 [344 kB] Get: 219 http://deb.debian.org/debian unstable/main arm64 gnupg-l10n all 2.2.46-1 [702 kB] Get: 220 http://deb.debian.org/debian unstable/main arm64 gpg arm64 2.2.46-1+b1 [481 kB] Get: 221 http://deb.debian.org/debian unstable/main arm64 pinentry-curses arm64 1.3.1-2 [83.5 kB] Get: 222 http://deb.debian.org/debian unstable/main arm64 gpg-agent arm64 2.2.46-1+b1 [231 kB] Get: 223 http://deb.debian.org/debian unstable/main arm64 gpgsm arm64 2.2.46-1+b1 [232 kB] Get: 224 http://deb.debian.org/debian unstable/main arm64 gnupg all 2.2.46-1 [376 kB] Get: 225 http://deb.debian.org/debian unstable/main arm64 gpgv arm64 2.2.46-1+b1 [200 kB] Get: 226 http://deb.debian.org/debian unstable/main arm64 sopv-gpgv all 0.1.1-1 [10.7 kB] Get: 227 http://deb.debian.org/debian unstable/main arm64 libfile-dirlist-perl all 0.05-3 [7600 B] Get: 228 http://deb.debian.org/debian unstable/main arm64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 229 http://deb.debian.org/debian unstable/main arm64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get: 230 http://deb.debian.org/debian unstable/main arm64 libfile-touch-perl all 0.12-2 [8816 B] Get: 231 http://deb.debian.org/debian unstable/main arm64 libio-pty-perl arm64 1:1.20-1+b2 [34.0 kB] Get: 232 http://deb.debian.org/debian unstable/main arm64 libipc-run-perl all 20231003.0-2 [101 kB] Get: 233 http://deb.debian.org/debian unstable/main arm64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB] Get: 234 http://deb.debian.org/debian unstable/main arm64 libclass-xsaccessor-perl arm64 1.19-4+b4 [34.9 kB] Get: 235 http://deb.debian.org/debian unstable/main arm64 libb-hooks-op-check-perl arm64 0.22-3+b2 [10.6 kB] Get: 236 http://deb.debian.org/debian unstable/main arm64 libdynaloader-functions-perl all 0.004-1 [12.1 kB] Get: 237 http://deb.debian.org/debian unstable/main arm64 libdevel-callchecker-perl arm64 0.009-1+b1 [16.3 kB] Get: 238 http://deb.debian.org/debian unstable/main arm64 libparams-classify-perl arm64 0.015-2+b4 [22.3 kB] Get: 239 http://deb.debian.org/debian unstable/main arm64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get: 240 http://deb.debian.org/debian unstable/main arm64 libimport-into-perl all 1.002005-2 [11.3 kB] Get: 241 http://deb.debian.org/debian unstable/main arm64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get: 242 http://deb.debian.org/debian unstable/main arm64 libsub-quote-perl all 2.006008-1 [21.8 kB] Get: 243 http://deb.debian.org/debian unstable/main arm64 libmoo-perl all 2.005005-1 [58.0 kB] Get: 244 http://deb.debian.org/debian unstable/main arm64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 245 http://deb.debian.org/debian unstable/main arm64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 246 http://deb.debian.org/debian unstable/main arm64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 247 http://deb.debian.org/debian unstable/main arm64 libfile-listing-perl all 6.16-1 [12.4 kB] Get: 248 http://deb.debian.org/debian unstable/main arm64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get: 249 http://deb.debian.org/debian unstable/main arm64 liburi-perl all 5.30-1 [105 kB] Get: 250 http://deb.debian.org/debian unstable/main arm64 libhtml-parser-perl arm64 3.83-1+b2 [97.5 kB] Get: 251 http://deb.debian.org/debian unstable/main arm64 libhtml-tree-perl all 5.07-3 [211 kB] Get: 252 http://deb.debian.org/debian unstable/main arm64 libclone-perl arm64 0.47-1+b1 [13.7 kB] Get: 253 http://deb.debian.org/debian unstable/main arm64 libio-html-perl all 1.004-3 [16.2 kB] Get: 254 http://deb.debian.org/debian unstable/main arm64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 255 http://deb.debian.org/debian unstable/main arm64 libhttp-message-perl all 7.00-2 [79.8 kB] Get: 256 http://deb.debian.org/debian unstable/main arm64 libhttp-cookies-perl all 6.11-1 [19.1 kB] Get: 257 http://deb.debian.org/debian unstable/main arm64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get: 258 http://deb.debian.org/debian unstable/main arm64 perl-openssl-defaults arm64 7+b2 [6712 B] Get: 259 http://deb.debian.org/debian unstable/main arm64 libnet-ssleay-perl arm64 1.94-2 [323 kB] Get: 260 http://deb.debian.org/debian unstable/main arm64 libio-socket-ssl-perl all 2.089-1 [223 kB] Get: 261 http://deb.debian.org/debian unstable/main arm64 libnet-http-perl all 6.23-1 [23.9 kB] Get: 262 http://deb.debian.org/debian unstable/main arm64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB] Get: 263 http://deb.debian.org/debian unstable/main arm64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 264 http://deb.debian.org/debian unstable/main arm64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get: 265 http://deb.debian.org/debian unstable/main arm64 libwww-perl all 6.77-1 [183 kB] Get: 266 http://deb.debian.org/debian unstable/main arm64 patchutils arm64 0.4.2-1+b1 [71.3 kB] Get: 267 http://deb.debian.org/debian unstable/main arm64 wdiff arm64 1.2.2-7 [121 kB] Get: 268 http://deb.debian.org/debian unstable/main arm64 devscripts all 2.25.1 [1053 kB] Get: 269 http://deb.debian.org/debian unstable/main arm64 xml-core all 0.19 [20.1 kB] Get: 270 http://deb.debian.org/debian unstable/main arm64 docutils-common all 0.21.2+dfsg-2 [128 kB] Get: 271 http://deb.debian.org/debian unstable/main arm64 fastjar arm64 2:0.98-7+b1 [74.9 kB] Get: 272 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 14.2.0-14 [361 kB] Get: 273 http://deb.debian.org/debian unstable/main arm64 libgfortran-14-dev arm64 14.2.0-14 [427 kB] Get: 274 http://deb.debian.org/debian unstable/main arm64 gfortran-14-aarch64-linux-gnu arm64 14.2.0-14 [9793 kB] Get: 275 http://deb.debian.org/debian unstable/main arm64 gfortran-14 arm64 14.2.0-14 [13.5 kB] Get: 276 http://deb.debian.org/debian unstable/main arm64 libnl-3-200 arm64 3.7.0-0.3+b1 [57.0 kB] Get: 277 http://deb.debian.org/debian unstable/main arm64 libnl-route-3-200 arm64 3.7.0-0.3+b1 [167 kB] Get: 278 http://deb.debian.org/debian unstable/main arm64 libibverbs1 arm64 55.0-1 [58.6 kB] Get: 279 http://deb.debian.org/debian unstable/main arm64 ibverbs-providers arm64 55.0-1 [328 kB] Get: 280 http://deb.debian.org/debian unstable/main arm64 jarwrapper all 0.80 [9692 B] Get: 281 http://deb.debian.org/debian unstable/main arm64 javahelper all 0.80 [80.4 kB] Get: 282 http://deb.debian.org/debian unstable/main arm64 libhamcrest-java all 2.2-2 [121 kB] Get: 283 http://deb.debian.org/debian unstable/main arm64 junit4 all 4.13.2-5 [350 kB] Get: 284 http://deb.debian.org/debian unstable/main arm64 libapiguardian-java all 1.1.2-1 [4656 B] Get: 285 http://deb.debian.org/debian unstable/main arm64 libopentest4j-java all 1.2.0-4 [9516 B] Get: 286 http://deb.debian.org/debian unstable/main arm64 libopentest4j-reporting-java all 0.1.0-M1-2 [49.0 kB] Get: 287 http://deb.debian.org/debian unstable/main arm64 libpicocli-java all 4.6.2-2 [390 kB] Get: 288 http://deb.debian.org/debian unstable/main arm64 libunivocity-parsers-java all 2.9.1-1 [397 kB] Get: 289 http://deb.debian.org/debian unstable/main arm64 junit5 all 5.10.3-1 [2459 kB] Get: 290 http://deb.debian.org/debian unstable/main arm64 libgssrpc4t64 arm64 1.21.3-4 [56.9 kB] Get: 291 http://deb.debian.org/debian unstable/main arm64 libkadm5clnt-mit12 arm64 1.21.3-4 [41.0 kB] Get: 292 http://deb.debian.org/debian unstable/main arm64 libkdb5-10t64 arm64 1.21.3-4 [41.0 kB] Get: 293 http://deb.debian.org/debian unstable/main arm64 libkadm5srv-mit12 arm64 1.21.3-4 [53.1 kB] Get: 294 http://deb.debian.org/debian unstable/main arm64 krb5-multidev arm64 1.21.3-4 [126 kB] Get: 295 http://deb.debian.org/debian unstable/main arm64 libllvm17t64 arm64 1:17.0.6-20+b1 [21.3 MB] Get: 296 http://deb.debian.org/debian unstable/main arm64 libamd-comgr2 arm64 6.0+git20231212.4510c28+dfsg-3+b2 [12.1 MB] Get: 297 http://deb.debian.org/debian unstable/main arm64 libnuma1 arm64 2.0.18-1+b1 [21.8 kB] Get: 298 http://deb.debian.org/debian unstable/main arm64 libhsakmt1 arm64 6.1.2+ds-1 [56.9 kB] Get: 299 http://deb.debian.org/debian unstable/main arm64 libhsa-runtime64-1 arm64 6.1.2-2 [300 kB] Get: 300 http://deb.debian.org/debian unstable/main arm64 libamdhip64-5 arm64 5.7.1-5 [8823 kB] Get: 301 http://deb.debian.org/debian unstable/main arm64 libaopalliance-java all 20070526-7 [8572 B] Get: 302 http://deb.debian.org/debian unstable/main arm64 libapache-pom-java all 33-2 [5852 B] Get: 303 http://deb.debian.org/debian unstable/main arm64 libasm-java all 9.7.1-1 [391 kB] Get: 304 http://deb.debian.org/debian unstable/main arm64 libatinject-jsr330-api-java all 1.0+ds1-6 [5112 B] Get: 305 http://deb.debian.org/debian unstable/main arm64 libbrotli-dev arm64 1.1.0-2+b6 [308 kB] Get: 306 http://deb.debian.org/debian unstable/main arm64 libbsh-java all 2.0b4-20 [291 kB] Get: 307 http://deb.debian.org/debian unstable/main arm64 libcommons-parent-java all 56-1 [10.8 kB] Get: 308 http://deb.debian.org/debian unstable/main arm64 libcommons-io-java all 2.17.0-1 [488 kB] Get: 309 http://deb.debian.org/debian unstable/main arm64 libslf4j-java all 1.7.32-1 [144 kB] Get: 310 http://deb.debian.org/debian unstable/main arm64 libmaven-shared-utils-java all 3.4.2-1 [137 kB] Get: 311 http://deb.debian.org/debian unstable/main arm64 libcommons-cli-java all 1.6.0-1 [60.4 kB] Get: 312 http://deb.debian.org/debian unstable/main arm64 libgeronimo-annotation-1.3-spec-java all 1.3-1 [11.1 kB] Get: 313 http://deb.debian.org/debian unstable/main arm64 liberror-prone-java all 2.18.0-1 [22.5 kB] Get: 314 http://deb.debian.org/debian unstable/main arm64 libjsr305-java all 0.1~+svn49-11 [26.9 kB] Get: 315 http://deb.debian.org/debian unstable/main arm64 libguava-java all 32.0.1-1 [2708 kB] Get: 316 http://deb.debian.org/debian unstable/main arm64 libguice-java all 5.1.0-1 [932 kB] Get: 317 http://deb.debian.org/debian unstable/main arm64 libmaven-parent-java all 43-2 [6252 B] Get: 318 http://deb.debian.org/debian unstable/main arm64 libcommons-lang3-java all 3.17.0-1 [641 kB] Get: 319 http://deb.debian.org/debian unstable/main arm64 libplexus-utils2-java all 3.4.2-1 [258 kB] Get: 320 http://deb.debian.org/debian unstable/main arm64 libwagon-provider-api-java all 3.5.3-1 [48.2 kB] Get: 321 http://deb.debian.org/debian unstable/main arm64 libmaven-resolver-java all 1.9.22-1 [729 kB] Get: 322 http://deb.debian.org/debian unstable/main arm64 libplexus-cipher-java all 2.0-1 [14.9 kB] Get: 323 http://deb.debian.org/debian unstable/main arm64 libplexus-classworlds-java all 2.7.0-1 [50.6 kB] Get: 324 http://deb.debian.org/debian unstable/main arm64 libplexus-component-annotations-java all 2.1.1-1 [7660 B] Get: 325 http://deb.debian.org/debian unstable/main arm64 libplexus-interpolation-java all 1.27-1 [76.8 kB] Get: 326 http://deb.debian.org/debian unstable/main arm64 libplexus-sec-dispatcher-java all 2.0-3 [28.3 kB] Get: 327 http://deb.debian.org/debian unstable/main arm64 libgeronimo-interceptor-3.0-spec-java all 1.0.1-4 [8484 B] Get: 328 http://deb.debian.org/debian unstable/main arm64 libcdi-api-java all 1.2-4 [55.3 kB] Get: 329 http://deb.debian.org/debian unstable/main arm64 libsisu-inject-java all 0.3.5-1 [352 kB] Get: 330 http://deb.debian.org/debian unstable/main arm64 libsisu-plexus-java all 0.3.5-1 [183 kB] Get: 331 http://deb.debian.org/debian unstable/main arm64 libmaven3-core-java all 3.9.9-1 [1661 kB] Get: 332 http://deb.debian.org/debian unstable/main arm64 libmaven-shared-io-java all 3.0.0-4 [33.2 kB] Get: 333 http://deb.debian.org/debian unstable/main arm64 libmaven-file-management-java all 3.0.0-1 [35.1 kB] Get: 334 http://deb.debian.org/debian unstable/main arm64 libbuild-helper-maven-plugin-java all 3.3.0-1 [59.5 kB] Get: 335 http://deb.debian.org/debian unstable/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 336 http://deb.debian.org/debian unstable/main arm64 libcatch2-dev arm64 3.7.1-0.4 [588 kB] Get: 337 http://deb.debian.org/debian unstable/main arm64 libcommons-collections3-java all 3.2.2-3 [530 kB] Get: 338 http://deb.debian.org/debian unstable/main arm64 libcommons-logging-java all 1.3.0-1 [68.6 kB] Get: 339 http://deb.debian.org/debian unstable/main arm64 libcommons-beanutils-java all 1.9.4-2 [233 kB] Get: 340 http://deb.debian.org/debian unstable/main arm64 libcommons-codec-java all 1.17.1-1 [303 kB] Get: 341 http://deb.debian.org/debian unstable/main arm64 libcommons-collections4-java all 4.4-2 [682 kB] Get: 342 http://deb.debian.org/debian unstable/main arm64 libcommons-compress-java all 1.27.1-2 [641 kB] Get: 343 http://deb.debian.org/debian unstable/main arm64 libcommons-digester-java all 1.8.1-7 [138 kB] Get: 344 http://deb.debian.org/debian unstable/main arm64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get: 345 http://deb.debian.org/debian unstable/main arm64 libcommons-lang-java all 2.6-10 [273 kB] Get: 346 http://deb.debian.org/debian unstable/main arm64 libplexus-io-java all 3.3.1-2 [65.3 kB] Get: 347 http://deb.debian.org/debian unstable/main arm64 libsnappy1v5 arm64 1.2.1-1+b1 [28.7 kB] Get: 348 http://deb.debian.org/debian unstable/main arm64 libsnappy-jni arm64 1.1.10.7-1 [6476 B] Get: 349 http://deb.debian.org/debian unstable/main arm64 libsnappy-java all 1.1.10.7-1 [87.6 kB] Get: 350 http://deb.debian.org/debian unstable/main arm64 libxz-java all 1.9-1 [143 kB] Get: 351 http://deb.debian.org/debian unstable/main arm64 libplexus-archiver-java all 4.6.1-1 [187 kB] Get: 352 http://deb.debian.org/debian unstable/main arm64 libmaven-archiver-java all 3.6.2-1 [26.1 kB] Get: 353 http://deb.debian.org/debian unstable/main arm64 libmaven-jar-plugin-java all 3.3.0-2 [24.0 kB] Get: 354 http://deb.debian.org/debian unstable/main arm64 libcommons-text-java all 1.12.0-1 [222 kB] Get: 355 http://deb.debian.org/debian unstable/main arm64 libcommons-validator-java all 1:1.9.0-1 [191 kB] Get: 356 http://deb.debian.org/debian unstable/main arm64 libidn2-dev arm64 2.3.7-2+b1 [122 kB] Get: 357 http://deb.debian.org/debian unstable/main arm64 libkrb5-dev arm64 1.21.3-4 [15.9 kB] Get: 358 http://deb.debian.org/debian unstable/main arm64 libldap-dev arm64 2.6.9+dfsg-1 [305 kB] Get: 359 http://deb.debian.org/debian unstable/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 360 http://deb.debian.org/debian unstable/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 361 http://deb.debian.org/debian unstable/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 362 http://deb.debian.org/debian unstable/main arm64 libnghttp2-dev arm64 1.64.0-1 [112 kB] Get: 363 http://deb.debian.org/debian unstable/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 364 http://deb.debian.org/debian unstable/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-3 [329 kB] Get: 365 http://deb.debian.org/debian unstable/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-3 [621 kB] Get: 366 http://deb.debian.org/debian unstable/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 367 http://deb.debian.org/debian unstable/main arm64 libunbound8 arm64 1.22.0-1+b1 [553 kB] Get: 368 http://deb.debian.org/debian unstable/main arm64 libgnutls-dane0t64 arm64 3.8.8-2 [446 kB] Get: 369 http://deb.debian.org/debian unstable/main arm64 libgnutls-openssl27t64 arm64 3.8.8-2 [446 kB] Get: 370 http://deb.debian.org/debian unstable/main arm64 libp11-kit-dev arm64 0.25.5-3 [208 kB] Get: 371 http://deb.debian.org/debian unstable/main arm64 libtasn1-6-dev arm64 4.19.0-3+b3 [96.5 kB] Get: 372 http://deb.debian.org/debian unstable/main arm64 nettle-dev arm64 3.10-1+b1 [1324 kB] Get: 373 http://deb.debian.org/debian unstable/main arm64 libgnutls28-dev arm64 3.8.8-2 [1404 kB] Get: 374 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 375 http://deb.debian.org/debian unstable/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-2+b5 [67.5 kB] Get: 376 http://deb.debian.org/debian unstable/main arm64 libssl-dev arm64 3.4.0-2 [3234 kB] Get: 377 http://deb.debian.org/debian unstable/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 378 http://deb.debian.org/debian unstable/main arm64 libzstd-dev arm64 1.5.6+dfsg-2 [329 kB] Get: 379 http://deb.debian.org/debian unstable/main arm64 libcurl4-openssl-dev arm64 8.11.1-1+b1 [449 kB] Get: 380 http://deb.debian.org/debian unstable/main arm64 libcurlpp0t64 arm64 0.8.1-6 [26.1 kB] Get: 381 http://deb.debian.org/debian unstable/main arm64 libcurlpp-dev arm64 0.8.1-6 [58.3 kB] Get: 382 http://deb.debian.org/debian unstable/main arm64 libjaxen-java all 1.1.6-5 [214 kB] Get: 383 http://deb.debian.org/debian unstable/main arm64 libdom4j-java all 2.1.4-1 [312 kB] Get: 384 http://deb.debian.org/debian unstable/main arm64 libdoxia-core-java all 2.0.0-1 [149 kB] Get: 385 http://deb.debian.org/debian unstable/main arm64 libplexus-xml-java all 3.0.1-2 [93.7 kB] Get: 386 http://deb.debian.org/debian unstable/main arm64 libdoxia-java all 2.0.0-1 [113 kB] Get: 387 http://deb.debian.org/debian unstable/main arm64 libmaven-reporting-api-java all 4.0.0-1 [6724 B] Get: 388 http://deb.debian.org/debian unstable/main arm64 libxbean-reflect-java all 4.5-9 [132 kB] Get: 389 http://deb.debian.org/debian unstable/main arm64 libplexus-container-default-java all 2.1.1-1 [193 kB] Get: 390 http://deb.debian.org/debian unstable/main arm64 libplexus-i18n-java all 1.0-beta-10-6 [13.4 kB] Get: 391 http://deb.debian.org/debian unstable/main arm64 velocity all 1.7-7 [431 kB] Get: 392 http://deb.debian.org/debian unstable/main arm64 libplexus-velocity-java all 1.2-4 [9676 B] Get: 393 http://deb.debian.org/debian unstable/main arm64 liboro-java all 2.0.8a-14 [70.5 kB] Get: 394 http://deb.debian.org/debian unstable/main arm64 libvelocity-tools-java all 2.0-9 [311 kB] Get: 395 http://deb.debian.org/debian unstable/main arm64 libdoxia-sitetools-java all 2.0.0-1 [176 kB] Get: 396 http://deb.debian.org/debian unstable/main arm64 libel-api-java all 3.0.0-3 [64.9 kB] Get: 397 http://deb.debian.org/debian unstable/main arm64 libevent-core-2.1-7t64 arm64 2.1.12-stable-10+b1 [126 kB] Get: 398 http://deb.debian.org/debian unstable/main arm64 libevent-extra-2.1-7t64 arm64 2.1.12-stable-10+b1 [102 kB] Get: 399 http://deb.debian.org/debian unstable/main arm64 libevent-pthreads-2.1-7t64 arm64 2.1.12-stable-10+b1 [54.4 kB] Get: 400 http://deb.debian.org/debian unstable/main arm64 libevent-openssl-2.1-7t64 arm64 2.1.12-stable-10+b1 [60.4 kB] Get: 401 http://deb.debian.org/debian unstable/main arm64 libevent-dev arm64 2.1.12-stable-10+b1 [304 kB] Get: 402 http://deb.debian.org/debian unstable/main arm64 libezmorph-java all 1.0.6-4 [75.9 kB] Get: 403 http://deb.debian.org/debian unstable/main arm64 librdmacm1t64 arm64 55.0-1 [67.0 kB] Get: 404 http://deb.debian.org/debian unstable/main arm64 libfabric1 arm64 1.17.0-3.1 [480 kB] Get: 405 http://deb.debian.org/debian unstable/main arm64 libfmt10 arm64 10.1.1+ds1-4 [121 kB] Get: 406 http://deb.debian.org/debian unstable/main arm64 libfmt-dev arm64 10.1.1+ds1-4 [177 kB] Get: 407 http://deb.debian.org/debian unstable/main arm64 libgetopt-java all 1.0.14+dfsg-6 [25.7 kB] Get: 408 http://deb.debian.org/debian unstable/main arm64 libgoogle-gson-java all 2.10.1-1 [262 kB] Get: 409 http://deb.debian.org/debian unstable/main arm64 libxml-commons-external-java all 1.4.01-6 [240 kB] Get: 410 http://deb.debian.org/debian unstable/main arm64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get: 411 http://deb.debian.org/debian unstable/main arm64 libxerces2-java all 2.12.2-1 [1440 kB] Get: 412 http://deb.debian.org/debian unstable/main arm64 libxom-java all 1.3.9-1 [174 kB] Get: 413 http://deb.debian.org/debian unstable/main arm64 libjson-java all 3.1.0+dfsg-2 [142 kB] Get: 414 http://deb.debian.org/debian unstable/main arm64 libmbedcrypto16 arm64 3.6.2-3 [341 kB] Get: 415 http://deb.debian.org/debian unstable/main arm64 libmbedx509-7 arm64 3.6.2-3 [146 kB] Get: 416 http://deb.debian.org/debian unstable/main arm64 libmbedtls21 arm64 3.6.2-3 [222 kB] Get: 417 http://deb.debian.org/debian unstable/main arm64 ncbi-vdb-data all 3.0.9+dfsg-2 [74.0 kB] Get: 418 http://deb.debian.org/debian unstable/main arm64 libncbi-vdb3 arm64 3.0.9+dfsg-2 [1110 kB] Get: 419 http://deb.debian.org/debian unstable/main arm64 libncbi-ngs3 arm64 3.0.9+dfsg-7+b1 [143 kB] Get: 420 http://deb.debian.org/debian unstable/main arm64 libngs-jni arm64 3.0.9+dfsg-7+b1 [25.8 kB] Get: 421 http://deb.debian.org/debian unstable/main arm64 libngs-java arm64 3.0.9+dfsg-7+b1 [112 kB] Get: 422 http://deb.debian.org/debian unstable/main arm64 librhino-java all 1.7.15-1 [1382 kB] Get: 423 http://deb.debian.org/debian unstable/main arm64 libhtsjdk-java all 4.1.3+dfsg-2 [1841 kB] Get: 424 http://deb.debian.org/debian unstable/main arm64 libhttpcore-java all 4.4.16-1 [636 kB] Get: 425 http://deb.debian.org/debian unstable/main arm64 libhttpclient-java all 4.5.14-1 [1247 kB] Get: 426 http://deb.debian.org/debian unstable/main arm64 libhwloc15 arm64 2.11.2-1 [141 kB] Get: 427 http://deb.debian.org/debian unstable/main arm64 libnuma-dev arm64 2.0.18-1+b1 [37.8 kB] Get: 428 http://deb.debian.org/debian unstable/main arm64 libltdl7 arm64 2.5.4-2 [415 kB] Get: 429 http://deb.debian.org/debian unstable/main arm64 libltdl-dev arm64 2.5.4-2 [166 kB] Get: 430 http://deb.debian.org/debian unstable/main arm64 libhwloc-dev arm64 2.11.2-1 [237 kB] Get: 431 http://deb.debian.org/debian unstable/main arm64 libpciaccess0 arm64 0.17-3+b3 [51.2 kB] Get: 432 http://deb.debian.org/debian unstable/main arm64 libxnvctrl0 arm64 535.171.04-1+b1 [14.1 kB] Get: 433 http://deb.debian.org/debian unstable/main arm64 ocl-icd-libopencl1 arm64 2.3.2-1+b2 [39.3 kB] Get: 434 http://deb.debian.org/debian unstable/main arm64 libhwloc-plugins arm64 2.11.2-1 [17.9 kB] Get: 435 http://deb.debian.org/debian unstable/main arm64 libibumad3 arm64 55.0-1 [27.2 kB] Get: 436 http://deb.debian.org/debian unstable/main arm64 libibmad5 arm64 55.0-1 [41.3 kB] Get: 437 http://deb.debian.org/debian unstable/main arm64 libnl-3-dev arm64 3.7.0-0.3+b1 [101 kB] Get: 438 http://deb.debian.org/debian unstable/main arm64 libnl-route-3-dev arm64 3.7.0-0.3+b1 [198 kB] Get: 439 http://deb.debian.org/debian unstable/main arm64 libibverbs-dev arm64 55.0-1 [637 kB] Get: 440 http://deb.debian.org/debian unstable/main arm64 libjansi-java all 2.4.1-2 [100 kB] Get: 441 http://deb.debian.org/debian unstable/main arm64 libjcommander-java all 1.71-4 [73.0 kB] Get: 442 http://deb.debian.org/debian unstable/main arm64 libjsp-api-java all 2.3.4-3 [53.7 kB] Get: 443 http://deb.debian.org/debian unstable/main arm64 libservlet-api-java all 4.0.1-2 [81.0 kB] Get: 444 http://deb.debian.org/debian unstable/main arm64 libwebsocket-api-java all 1.1-2 [40.1 kB] Get: 445 http://deb.debian.org/debian unstable/main arm64 libjetty9-java all 9.4.56-1 [2964 kB] Get: 446 http://deb.debian.org/debian unstable/main arm64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 447 http://deb.debian.org/debian unstable/main arm64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 448 http://deb.debian.org/debian unstable/main arm64 libjs-underscore all 1.13.4~dfsg+~1.11.4-3 [116 kB] Get: 449 http://deb.debian.org/debian unstable/main arm64 libjs-sphinxdoc all 8.1.3-4 [30.4 kB] Get: 450 http://deb.debian.org/debian unstable/main arm64 libjson-perl all 4.10000-1 [87.5 kB] Get: 451 http://deb.debian.org/debian unstable/main arm64 libjson-simple-java all 2.3.0-1 [63.8 kB] Get: 452 http://deb.debian.org/debian unstable/main arm64 libjsoup-java all 1.15.3-1 [431 kB] Get: 453 http://deb.debian.org/debian unstable/main arm64 libjtidy-java all 7+svn20110807-5 [250 kB] Get: 454 http://deb.debian.org/debian unstable/main arm64 liblightcouch-java all 0.2.0-1 [75.0 kB] Get: 455 http://deb.debian.org/debian unstable/main arm64 libmongodb-java all 3.6.3-2 [1901 kB] Get: 456 http://deb.debian.org/debian unstable/main arm64 liblog4j2-java all 2.19.0-2 [2310 kB] Get: 457 http://deb.debian.org/debian unstable/main arm64 liblzma-dev arm64 5.6.3-1+b1 [312 kB] Get: 458 http://deb.debian.org/debian unstable/main arm64 libmaven-antrun-plugin-java all 3.1.0-1 [36.9 kB] Get: 459 http://deb.debian.org/debian unstable/main arm64 libmaven-clean-plugin-java all 3.2.0-2 [32.2 kB] Get: 460 http://deb.debian.org/debian unstable/main arm64 libmaven-common-artifact-filters-java all 3.4.0-1 [47.7 kB] Get: 461 http://deb.debian.org/debian unstable/main arm64 libmaven-shared-incremental-java all 1.1-6 [9916 B] Get: 462 http://deb.debian.org/debian unstable/main arm64 libplexus-compiler-java all 2.13.0-1 [99.5 kB] Get: 463 http://deb.debian.org/debian unstable/main arm64 libqdox2-java all 2.0.3-1 [296 kB] Get: 464 http://deb.debian.org/debian unstable/main arm64 libplexus-languages-java all 1.1.1-2 [47.3 kB] Get: 465 http://deb.debian.org/debian unstable/main arm64 libmaven-compiler-plugin-java all 3.13.0-1 [78.8 kB] Get: 466 http://deb.debian.org/debian unstable/main arm64 libplexus-build-api-java all 0.0.7-4 [10.3 kB] Get: 467 http://deb.debian.org/debian unstable/main arm64 libmaven-filtering-java all 3.4.0-1 [51.4 kB] Get: 468 http://deb.debian.org/debian unstable/main arm64 libplexus-container-default1.5-java all 2.1.1-1 [4476 B] Get: 469 http://deb.debian.org/debian unstable/main arm64 libplexus-ant-factory-java all 1.0~alpha2.1-4 [11.4 kB] Get: 470 http://deb.debian.org/debian unstable/main arm64 libplexus-bsh-factory-java all 1.0~alpha7-5 [8360 B] Get: 471 http://deb.debian.org/debian unstable/main arm64 libmaven-plugin-tools-java all 3.10.2-1 [245 kB] Get: 472 http://deb.debian.org/debian unstable/main arm64 libmaven-reporting-exec-java all 2.0.0-1 [23.9 kB] Get: 473 http://deb.debian.org/debian unstable/main arm64 libmaven-resources-plugin-java all 3.3.1-1 [27.5 kB] Get: 474 http://deb.debian.org/debian unstable/main arm64 libmaven-site-plugin-java all 3.21.0-1 [106 kB] Get: 475 http://deb.debian.org/debian unstable/main arm64 libmunge2 arm64 0.5.15-4+b1 [19.4 kB] Get: 476 http://deb.debian.org/debian unstable/main arm64 libmuparserx4.0.12 arm64 4.0.12-2 [172 kB] Get: 477 http://deb.debian.org/debian unstable/main arm64 libmuparserx-dev arm64 4.0.12-2 [38.5 kB] Get: 478 http://deb.debian.org/debian unstable/main arm64 libpmix2t64 arm64 5.0.6-1 [577 kB] Get: 479 http://deb.debian.org/debian unstable/main arm64 libucx0 arm64 1.17.0+ds-3 [959 kB] Get: 480 http://deb.debian.org/debian unstable/main arm64 libopenmpi40 arm64 5.0.6-3 [2087 kB] Get: 481 http://deb.debian.org/debian unstable/main arm64 openmpi-common all 5.0.6-3 [97.0 kB] Get: 482 http://deb.debian.org/debian unstable/main arm64 python3-defusedxml all 0.7.1-3 [43.4 kB] Get: 483 http://deb.debian.org/debian unstable/main arm64 sphinx-common all 8.1.3-4 [616 kB] Get: 484 http://deb.debian.org/debian unstable/main arm64 python3-alabaster all 0.7.16-0.1 [27.9 kB] Get: 485 http://deb.debian.org/debian unstable/main arm64 python-babel-localedata all 2.16.0-1 [5696 kB] Get: 486 http://deb.debian.org/debian unstable/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 487 http://deb.debian.org/debian unstable/main arm64 python3-more-itertools all 10.6.0-1 [65.3 kB] Get: 488 http://deb.debian.org/debian unstable/main arm64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 489 http://deb.debian.org/debian unstable/main arm64 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 490 http://deb.debian.org/debian unstable/main arm64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 491 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 492 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 493 http://deb.debian.org/debian unstable/main arm64 python3-pkg-resources all 75.6.0-1 [222 kB] Get: 494 http://deb.debian.org/debian unstable/main arm64 python3-babel all 2.16.0-1 [114 kB] Get: 495 http://deb.debian.org/debian unstable/main arm64 python3-roman all 4.2-1 [10.4 kB] Get: 496 http://deb.debian.org/debian unstable/main arm64 python3-docutils all 0.21.2+dfsg-2 [403 kB] Get: 497 http://deb.debian.org/debian unstable/main arm64 python3-imagesize all 1.4.1-1 [6688 B] Get: 498 http://deb.debian.org/debian unstable/main arm64 python3-markupsafe arm64 2.1.5-1+b3 [14.0 kB] Get: 499 http://deb.debian.org/debian unstable/main arm64 python3-jinja2 all 3.1.5-1 [107 kB] Get: 500 http://deb.debian.org/debian unstable/main arm64 python3-packaging all 24.2-1 [55.3 kB] Get: 501 http://deb.debian.org/debian unstable/main arm64 python3-pygments all 2.18.0+dfsg-2 [836 kB] Get: 502 http://deb.debian.org/debian unstable/main arm64 python3-certifi all 2024.12.14+ds-1 [9624 B] Get: 503 http://deb.debian.org/debian unstable/main arm64 python3-charset-normalizer arm64 3.4.0-1+b1 [129 kB] Get: 504 http://deb.debian.org/debian unstable/main arm64 python3-idna all 3.8-2 [41.6 kB] Get: 505 http://deb.debian.org/debian unstable/main arm64 python3-urllib3 all 2.3.0-1 [114 kB] Get: 506 http://deb.debian.org/debian unstable/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB] Get: 507 http://deb.debian.org/debian unstable/main arm64 python3-requests all 2.32.3+dfsg-1 [71.9 kB] Get: 508 http://deb.debian.org/debian unstable/main arm64 python3-snowballstemmer all 2.2.0-4 [58.0 kB] Get: 509 http://deb.debian.org/debian unstable/main arm64 python3-sphinx all 8.1.3-4 [468 kB] Get: 510 http://deb.debian.org/debian unstable/main arm64 libpmix-dev arm64 5.0.6-1 [3933 kB] Get: 511 http://deb.debian.org/debian unstable/main arm64 openmpi-bin arm64 5.0.6-3 [180 kB] Get: 512 http://deb.debian.org/debian unstable/main arm64 libopenmpi-dev arm64 5.0.6-3 [1088 kB] Get: 513 http://deb.debian.org/debian unstable/main arm64 libprotobuf32t64 arm64 3.21.12-10+b3 [859 kB] Get: 514 http://deb.debian.org/debian unstable/main arm64 libprotobuf-lite32t64 arm64 3.21.12-10+b3 [250 kB] Get: 515 http://deb.debian.org/debian unstable/main arm64 libprotobuf-dev arm64 3.21.12-10+b3 [1267 kB] Get: 516 http://deb.debian.org/debian unstable/main arm64 libprotobuf-java all 3.21.12-10 [1268 kB] Get: 517 http://deb.debian.org/debian unstable/main arm64 libprotoc32t64 arm64 3.21.12-10+b3 [788 kB] Get: 518 http://deb.debian.org/debian unstable/main arm64 libspdlog1.15 arm64 1:1.15.0+ds-2 [98.7 kB] Get: 519 http://deb.debian.org/debian unstable/main arm64 libspdlog-dev arm64 1:1.15.0+ds-2 [89.3 kB] Get: 520 http://deb.debian.org/debian unstable/main arm64 libsurefire-java all 2.22.3-3 [1284 kB] Get: 521 http://deb.debian.org/debian unstable/main arm64 libwagon-file-java all 3.5.3-1 [8388 B] Get: 522 http://deb.debian.org/debian unstable/main arm64 libwagon-http-java all 3.5.3-1 [49.5 kB] Get: 523 http://deb.debian.org/debian unstable/main arm64 libxml2-utils arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [97.7 kB] Get: 524 http://deb.debian.org/debian unstable/main arm64 maven all 3.9.9-1 [19.7 kB] Get: 525 http://deb.debian.org/debian unstable/main arm64 maven-repo-helper all 1.11 [142 kB] Get: 526 http://deb.debian.org/debian unstable/main arm64 unzip arm64 6.0-28+b1 [158 kB] Get: 527 http://deb.debian.org/debian unstable/main arm64 maven-debian-helper all 2.6.7 [108 kB] Get: 528 http://deb.debian.org/debian unstable/main arm64 mpi-default-dev arm64 1.18 [3372 B] Get: 529 http://deb.debian.org/debian unstable/main arm64 protobuf-compiler arm64 3.21.12-10+b3 [84.9 kB] Get: 530 http://deb.debian.org/debian unstable/main arm64 rapidjson-dev all 1.1.0+dfsg2-7.3 [98.0 kB] Get: 531 http://deb.debian.org/debian unstable/main arm64 testng all 6.9.12-4 [795 kB] Get: 532 http://deb.debian.org/debian unstable/main arm64 uuid-dev arm64 2.40.4-1 [48.2 kB] Fetched 388 MB in 3s (137 MB/s) Preconfiguring packages ... Selecting previously unselected package libsystemd-shared:arm64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19946 files and directories currently installed.) Preparing to unpack .../libsystemd-shared_257.2-2_arm64.deb ... Unpacking libsystemd-shared:arm64 (257.2-2) ... Selecting previously unselected package libapparmor1:arm64. Preparing to unpack .../libapparmor1_3.1.7-1+b3_arm64.deb ... Unpacking libapparmor1:arm64 (3.1.7-1+b3) ... Setting up libsystemd-shared:arm64 (257.2-2) ... 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 ... 19960 files and directories currently installed.) Preparing to unpack .../systemd_257.2-2_arm64.deb ... Unpacking systemd (257.2-2) ... Setting up libapparmor1:arm64 (3.1.7-1+b3) ... Setting up systemd (257.2-2) ... 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 ... 20903 files and directories currently installed.) Preparing to unpack .../00-systemd-sysv_257.2-2_arm64.deb ... Unpacking systemd-sysv (257.2-2) ... Selecting previously unselected package libdbus-1-3:arm64. Preparing to unpack .../01-libdbus-1-3_1.16.0-1_arm64.deb ... Unpacking libdbus-1-3:arm64 (1.16.0-1) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../02-dbus-bin_1.16.0-1_arm64.deb ... Unpacking dbus-bin (1.16.0-1) ... Selecting previously unselected package dbus-session-bus-common. Preparing to unpack .../03-dbus-session-bus-common_1.16.0-1_all.deb ... Unpacking dbus-session-bus-common (1.16.0-1) ... Selecting previously unselected package libexpat1:arm64. Preparing to unpack .../04-libexpat1_2.6.4-1_arm64.deb ... Unpacking libexpat1:arm64 (2.6.4-1) ... Selecting previously unselected package dbus-daemon. Preparing to unpack .../05-dbus-daemon_1.16.0-1_arm64.deb ... Unpacking dbus-daemon (1.16.0-1) ... Selecting previously unselected package dbus-system-bus-common. Preparing to unpack .../06-dbus-system-bus-common_1.16.0-1_all.deb ... Unpacking dbus-system-bus-common (1.16.0-1) ... Selecting previously unselected package dbus. Preparing to unpack .../07-dbus_1.16.0-1_arm64.deb ... Unpacking dbus (1.16.0-1) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package binfmt-support. Preparing to unpack .../09-binfmt-support_2.2.2-7+b1_arm64.deb ... Unpacking binfmt-support (2.2.2-7+b1) ... Selecting previously unselected package libpython3.13-minimal:arm64. Preparing to unpack .../10-libpython3.13-minimal_3.13.1-3_arm64.deb ... Unpacking libpython3.13-minimal:arm64 (3.13.1-3) ... Selecting previously unselected package python3.13-minimal. Preparing to unpack .../11-python3.13-minimal_3.13.1-3_arm64.deb ... Unpacking python3.13-minimal (3.13.1-3) ... Setting up libpython3.13-minimal:arm64 (3.13.1-3) ... Setting up libexpat1:arm64 (2.6.4-1) ... Setting up python3.13-minimal (3.13.1-3) ... 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 ... 21352 files and directories currently installed.) Preparing to unpack .../0-python3-minimal_3.13.1-2_arm64.deb ... Unpacking python3-minimal (3.13.1-2) ... Selecting previously unselected package media-types. Preparing to unpack .../1-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../2-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../3-tzdata_2025a-1_all.deb ... Unpacking tzdata (2025a-1) ... Selecting previously unselected package libffi8:arm64. Preparing to unpack .../4-libffi8_3.4.6-1_arm64.deb ... Unpacking libffi8:arm64 (3.4.6-1) ... Selecting previously unselected package readline-common. Preparing to unpack .../5-readline-common_8.2-6_all.deb ... Unpacking readline-common (8.2-6) ... Selecting previously unselected package libreadline8t64:arm64. Preparing to unpack .../6-libreadline8t64_8.2-6_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.2-6) ... Selecting previously unselected package libpython3.13-stdlib:arm64. Preparing to unpack .../7-libpython3.13-stdlib_3.13.1-3_arm64.deb ... Unpacking libpython3.13-stdlib:arm64 (3.13.1-3) ... Selecting previously unselected package python3.13. Preparing to unpack .../8-python3.13_3.13.1-3_arm64.deb ... Unpacking python3.13 (3.13.1-3) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../9-libpython3-stdlib_3.13.1-2_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.13.1-2) ... Setting up python3-minimal (3.13.1-2) ... 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 ... 22362 files and directories currently installed.) Preparing to unpack .../000-python3_3.13.1-2_arm64.deb ... Unpacking python3 (3.13.1-2) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package libproc2-0:arm64. Preparing to unpack .../002-libproc2-0_2%3a4.0.4-6_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a4.0.4-6_arm64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package openssl. Preparing to unpack .../005-openssl_3.4.0-2_arm64.deb ... Unpacking openssl (3.4.0-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../006-ca-certificates_20241223_all.deb ... Unpacking ca-certificates (20241223) ... Selecting previously unselected package libmagic-mgc. 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Preparing to unpack .../013-libpam-systemd_257.2-2_arm64.deb ... Unpacking libpam-systemd:arm64 (257.2-2) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../014-bsdextrautils_2.40.4-1_arm64.deb ... Unpacking bsdextrautils (2.40.4-1) ... Selecting previously unselected package man-db. Preparing to unpack .../015-man-db_2.13.0-1_arm64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package libedit2:arm64. Preparing to unpack .../016-libedit2_3.1-20250104-1_arm64.deb ... Unpacking libedit2:arm64 (3.1-20250104-1) ... Selecting previously unselected package libcbor0.10:arm64. Preparing to unpack .../017-libcbor0.10_0.10.2-2_arm64.deb ... Unpacking libcbor0.10:arm64 (0.10.2-2) ... Selecting previously unselected package libfido2-1:arm64. Preparing to unpack .../018-libfido2-1_1.15.0-1+b1_arm64.deb ... Unpacking libfido2-1:arm64 (1.15.0-1+b1) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../019-libkrb5support0_1.21.3-4_arm64.deb ... Unpacking libkrb5support0:arm64 (1.21.3-4) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../020-libcom-err2_1.47.2-1_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.2-1) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../021-libk5crypto3_1.21.3-4_arm64.deb ... Unpacking libk5crypto3:arm64 (1.21.3-4) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../022-libkeyutils1_1.6.3-4_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../023-libkrb5-3_1.21.3-4_arm64.deb ... Unpacking libkrb5-3:arm64 (1.21.3-4) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../024-libgssapi-krb5-2_1.21.3-4_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.21.3-4) ... Selecting previously unselected package openssh-client. Preparing to unpack .../025-openssh-client_1%3a9.9p1-3_arm64.deb ... Unpacking openssh-client (1:9.9p1-3) ... Selecting previously unselected package libgdk-pixbuf2.0-common. Preparing to unpack .../026-libgdk-pixbuf2.0-common_2.42.12+dfsg-2_all.deb ... Unpacking libgdk-pixbuf2.0-common (2.42.12+dfsg-2) ... Selecting previously unselected package libglib2.0-0t64:arm64. Preparing to unpack .../027-libglib2.0-0t64_2.82.4-2_arm64.deb ... Unpacking libglib2.0-0t64:arm64 (2.82.4-2) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../028-libicu72_72.1-6_arm64.deb ... Unpacking libicu72:arm64 (72.1-6) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../029-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_arm64.deb ... Unpacking libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package shared-mime-info. Preparing to unpack .../030-shared-mime-info_2.4-5+b2_arm64.deb ... Unpacking shared-mime-info (2.4-5+b2) ... Selecting previously unselected package libjpeg62-turbo:arm64. Preparing to unpack .../031-libjpeg62-turbo_1%3a2.1.5-3+b1_arm64.deb ... Unpacking libjpeg62-turbo:arm64 (1:2.1.5-3+b1) ... Selecting previously unselected package libpng16-16t64:arm64. Preparing to unpack .../032-libpng16-16t64_1.6.45-1_arm64.deb ... Unpacking libpng16-16t64:arm64 (1.6.45-1) ... Selecting previously unselected package libdeflate0:arm64. Preparing to unpack .../033-libdeflate0_1.23-1+b1_arm64.deb ... Unpacking libdeflate0:arm64 (1.23-1+b1) ... Selecting previously unselected package libjbig0:arm64. Preparing to unpack .../034-libjbig0_2.1-6.1+b2_arm64.deb ... Unpacking libjbig0:arm64 (2.1-6.1+b2) ... Selecting previously unselected package liblerc4:arm64. Preparing to unpack .../035-liblerc4_4.0.0+ds-5_arm64.deb ... Unpacking liblerc4:arm64 (4.0.0+ds-5) ... Selecting previously unselected package libsharpyuv0:arm64. Preparing to unpack .../036-libsharpyuv0_1.5.0-0.1_arm64.deb ... Unpacking libsharpyuv0:arm64 (1.5.0-0.1) ... Selecting previously unselected package libwebp7:arm64. Preparing to unpack .../037-libwebp7_1.5.0-0.1_arm64.deb ... Unpacking libwebp7:arm64 (1.5.0-0.1) ... Selecting previously unselected package libtiff6:arm64. Preparing to unpack .../038-libtiff6_4.5.1+git230720-5_arm64.deb ... Unpacking libtiff6:arm64 (4.5.1+git230720-5) ... Selecting previously unselected package libgdk-pixbuf-2.0-0:arm64. Preparing to unpack .../039-libgdk-pixbuf-2.0-0_2.42.12+dfsg-2_arm64.deb ... Unpacking libgdk-pixbuf-2.0-0:arm64 (2.42.12+dfsg-2) ... Selecting previously unselected package gtk-update-icon-cache. Preparing to unpack .../040-gtk-update-icon-cache_4.16.12+ds-1_arm64.deb ... No diversion 'diversion of /usr/sbin/update-icon-caches to /usr/sbin/update-icon-caches.gtk2 by libgtk-3-bin', none removed. No diversion 'diversion of /usr/share/man/man8/update-icon-caches.8.gz to /usr/share/man/man8/update-icon-caches.gtk2.8.gz by libgtk-3-bin', none removed. Unpacking gtk-update-icon-cache (4.16.12+ds-1) ... Selecting previously unselected package hicolor-icon-theme. Preparing to unpack .../041-hicolor-icon-theme_0.18-2_all.deb ... Unpacking hicolor-icon-theme (0.18-2) ... Selecting previously unselected package adwaita-icon-theme. Preparing to unpack .../042-adwaita-icon-theme_47.0-2_all.deb ... Unpacking adwaita-icon-theme (47.0-2) ... Selecting previously unselected package ca-certificates-java. Preparing to unpack .../043-ca-certificates-java_20240118_all.deb ... Unpacking ca-certificates-java (20240118) ... Selecting previously unselected package java-common. Preparing to unpack .../044-java-common_0.76_all.deb ... Unpacking java-common (0.76) ... Selecting previously unselected package liblcms2-2:arm64. Preparing to unpack .../045-liblcms2-2_2.16-2_arm64.deb ... 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Setting up libxdamage1:arm64 (1:1.1.6-1+b2) ... Setting up libgmp-dev:arm64 (2:6.3.0+dfsg-3) ... Setting up libfile-listing-perl (6.16-1) ... Setting up libplexus-languages-java (1.1.1-2) ... Setting up protobuf-compiler (3.21.12-10+b3) ... Setting up nettle-dev:arm64 (3.10-1+b1) ... Setting up libxrender1:arm64 (1:0.9.10-1.1+b3) ... Setting up jarwrapper (0.80) ... Setting up libtool (2.5.4-2) ... Setting up libevent-pthreads-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Setting up fontconfig-config (2.15.0-2) ... Setting up libmaven-parent-java (43-2) ... Setting up libevent-openssl-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:arm64 (0.8-16) ... Setting up libcommons-logging-java (1.3.0-1) ... Setting up libxext6:arm64 (2:1.3.4-1+b3) ... Setting up libnet-http-perl (6.23-1) ... Setting up libsisu-inject-java (0.3.5-1) ... Setting up libidn2-0:arm64 (2.3.7-2+b1) ... Setting up libnss3:arm64 (2:3.107-1) ... Setting up dbus-daemon (1.16.0-1) ... Setting up libxom-java (1.3.9-1) ... Setting up libdevel-callchecker-perl:arm64 (0.009-1+b1) ... Setting up libcommons-lang-java (2.6-10) ... Setting up libplexus-cipher-java (2.0-1) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up libxxf86vm1:arm64 (1:1.1.4-1+b4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libnuma-dev:arm64 (2.0.18-1+b1) ... Setting up libnl-route-3-200:arm64 (3.7.0-0.3+b1) ... Setting up libxnvctrl0:arm64 (535.171.04-1+b1) ... Setting up libprotobuf-dev:arm64 (3.21.12-10+b3) ... Setting up dh-autoreconf (20) ... Setting up patchutils (0.4.2-1+b1) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up libltdl-dev:arm64 (2.5.4-2) ... Setting up libthai0:arm64 (0.1.29-2+b1) ... Setting up ca-certificates (20241223) ... Updating certificates in /etc/ssl/certs... 152 added, 0 removed; done. Setting up libsisu-plexus-java (0.3.5-1) ... Setting up libglib2.0-0t64:arm64 (2.82.4-2) ... Setting up libmbedx509-7:arm64 (3.6.2-3) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libllvm17t64:arm64 (1:17.0.6-20+b1) ... Setting up libfreetype6:arm64 (2.13.3+dfsg-1) ... Setting up libxfixes3:arm64 (1:6.0.0-2+b3) ... Setting up testng (6.9.12-4) ... Setting up libldap-dev:arm64 (2.6.9+dfsg-1) ... Setting up dbus (1.16.0-1) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b2) ... Setting up libp11-kit0:arm64 (0.25.5-3) ... Setting up libxinerama1:arm64 (2:1.1.4-3+b3) ... Setting up libgssapi-krb5-2:arm64 (1.21.3-4) ... Setting up libxrandr2:arm64 (2:1.5.4-1+b2) ... Setting up libcommons-collections4-java (4.4-2) ... Setting up libfmt-dev:arm64 (10.1.1+ds1-4) ... Setting up libspdlog1.15:arm64 (1:1.15.0+ds-2) ... Setting up libssh2-1-dev:arm64 (1.11.1-1) ... Setting up libidn2-dev:arm64 (2.3.7-2+b1) ... Setting up libjs-sphinxdoc (8.1.3-4) ... Setting up libcommons-lang3-java (3.17.0-1) ... Setting up libevent-extra-2.1-7t64:arm64 (2.1.12-stable-10+b1) ... Setting up libmbedtls21:arm64 (3.6.2-3) ... Setting up libreadline8t64:arm64 (8.2-6) ... Setting up dh-strip-nondeterminism (1.14.1-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libdrm2:arm64 (2.4.123-1) ... Setting up libnl-3-dev:arm64 (3.7.0-0.3+b1) ... Setting up groff-base (1.23.0-7) ... Setting up libwayland-cursor0:arm64 (1.23.0-1+b1) ... Setting up xml-core (0.19) ... Setting up libhtml-parser-perl:arm64 (3.83-1+b2) ... Setting up gfortran-14-aarch64-linux-gnu (14.2.0-14) ... Setting up gpgconf (2.2.46-1+b1) ... Setting up libpam-systemd:arm64 (257.2-2) ... Setting up libcommons-beanutils-java (1.9.4-2) ... Setting up libplexus-sec-dispatcher-java (2.0-3) ... Setting up libharfbuzz0b:arm64 (10.2.0-1) ... Setting up libgdk-pixbuf-2.0-0:arm64 (2.42.12+dfsg-2) ... Setting up libhwloc-dev:arm64 (2.11.2-1) ... Setting up libsnappy-java (1.1.10.7-1) ... Setting up libamd-comgr2:arm64 (6.0+git20231212.4510c28+dfsg-3+b2) ... Setting up libfontconfig1:arm64 (2.15.0-2) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up libwagon-file-java (3.5.3-1) ... Setting up libxml2-utils (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libcommons-codec-java (1.17.1-1) ... Setting up gfortran-14 (14.2.0-14) ... Setting up libarchive13t64:arm64 (3.7.4-1.1) ... Setting up libpython3.13-stdlib:arm64 (3.13.1-3) ... Setting up libavahi-client3:arm64 (0.8-16) ... Setting up libio-socket-ssl-perl (2.089-1) ... Setting up gpg (2.2.46-1+b1) ... Setting up libp11-kit-dev:arm64 (0.25.5-3) ... Setting up libpython3-stdlib:arm64 (3.13.1-2) ... Setting up libhttp-message-perl (7.00-2) ... Setting up libdrm-amdgpu1:arm64 (2.4.123-1) ... Setting up libgnutls30t64:arm64 (3.8.8-2) ... Setting up libgnutls-openssl27t64:arm64 (3.8.8-2) ... Setting up gtk-update-icon-cache (4.16.12+ds-1) ... Setting up libnghttp2-dev:arm64 (1.64.0-1) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up velocity (1.7-7) ... Setting up libibverbs1:arm64 (55.0-1) ... Setting up fontconfig (2.15.0-2) ... Regenerating fonts cache... done. Setting up gpg-agent (2.2.46-1+b1) ... 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:arm64 (2.55.0.1-1) ... Setting up openjdk-21-jre-headless:arm64 (21.0.6+7-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libxi6:arm64 (2:1.8.2-1) ... Setting up ibverbs-providers:arm64 (55.0-1) ... Setting up libhttp-cookies-perl (6.11-1) ... Setting up python3.13 (3.13.1-3) ... Setting up libcommons-io-java (2.17.0-1) ... Setting up libdrm-radeon1:arm64 (2.4.123-1) ... Setting up libcommons-digester-java (1.8.1-7) ... Setting up openssh-client (1:9.9p1-3) ... Setting up libxtst6:arm64 (2:1.2.5-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libxcursor1:arm64 (1:1.2.3-1) ... Setting up libparams-classify-perl:arm64 (0.015-2+b4) ... Setting up gpgsm (2.2.46-1+b1) ... Setting up libpango-1.0-0:arm64 (1.56.1-1) ... Setting up libpsl5t64:arm64 (0.21.2-1.1+b1) ... Setting up libncbi-vdb3:arm64 (3.0.9+dfsg-2) ... Setting up libcloudproviders0:arm64 (0.3.6-1+b1) ... Setting up python3 (3.13.1-2) ... Setting up sopv-gpgv (0.1.1-1) ... update-alternatives: using /usr/bin/sopv-gpgv to provide /usr/bin/sopv (sopv) in auto mode Setting up python3-autocommand (2.2.2-3) ... Setting up libhwloc-plugins:arm64 (2.11.2-1) ... Setting up libspdlog-dev:arm64 (1:1.15.0+ds-2) ... Setting up man-db (2.13.0-1) ... 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 python3-markupsafe (2.1.5-1+b3) ... Setting up libcairo2:arm64 (1.18.2-2) ... Setting up libcolord2:arm64 (1.4.7-1+b2) ... Setting up libpsl-dev:arm64 (0.21.2-1.1+b1) ... Setting up libdconf1:arm64 (0.40.0-5) ... Setting up libnl-route-3-dev:arm64 (3.7.0-0.3+b1) ... Setting up dirmngr (2.2.46-1+b1) ... Created symlink '/etc/systemd/user/sockets.target.wants/dirmngr.socket' -> '/usr/lib/systemd/user/dirmngr.socket'. Setting up libmaven-filtering-java (3.4.0-1) ... Setting up dbus-user-session (1.16.0-1) ... Setting up libmaven-resolver-java (1.9.22-1) ... Setting up python3-roman (4.2-1) ... Setting up python3-jinja2 (3.1.5-1) ... Setting up python3-pygments (2.18.0+dfsg-2) ... Setting up python3-packaging (24.2-1) ... Setting up python3-chardet (5.2.0+dfsg-2) ... Setting up libgnutls-dane0t64:arm64 (3.8.8-2) ... Setting up adwaita-icon-theme (47.0-2) ... 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 python3-certifi (2024.12.14+ds-1) ... Setting up libmodule-runtime-perl (0.016-2) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up python3-snowballstemmer (2.2.0-4) ... Setting up libgssrpc4t64:arm64 (1.21.3-4) ... Setting up libatspi2.0-0t64:arm64 (2.55.0.1-1) ... Setting up sphinx-common (8.1.3-4) ... Setting up libevent-dev (2.1.12-stable-10+b1) ... Setting up python3-idna (3.8-2) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up libpmix2t64:arm64 (5.0.6-1) ... Setting up python3-urllib3 (2.3.0-1) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up libmaven-common-artifact-filters-java (3.4.0-1) ... Setting up gnupg (2.2.46-1) ... Setting up librdmacm1t64:arm64 (55.0-1) ... Setting up liblightcouch-java (0.2.0-1) ... Setting up libwagon-http-java (3.5.3-1) ... Setting up libcairo-gobject2:arm64 (1.18.2-2) ... Setting up libmaven-shared-utils-java (3.4.2-1) ... Setting up libpangoft2-1.0-0:arm64 (1.56.1-1) ... Setting up libmaven-resources-plugin-java (3.3.1-1) ... Setting up libcups2t64:arm64 (2.4.10-2+b1) ... Setting up libhsakmt1:arm64 (6.1.2+ds-1) ... Setting up libpangocairo-1.0-0:arm64 (1.56.1-1) ... Setting up libkadm5clnt-mit12:arm64 (1.21.3-4) ... Setting up python3-imagesize (1.4.1-1) ... Setting up libgnutls28-dev:arm64 (3.8.8-2) ... Setting up libncbi-ngs3:arm64 (3.0.9+dfsg-7+b1) ... Setting up libatk-bridge2.0-0t64:arm64 (2.55.0.1-1) ... Setting up python3-more-itertools (10.6.0-1) ... Setting up libfabric1:arm64 (1.17.0-3.1) ... Setting up mesa-libgallium:arm64 (24.3.3-1) ... Setting up libngs-jni:arm64 (3.0.9+dfsg-7+b1) ... Setting up libplexus-io-java (3.3.1-2) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up libcommons-compress-java (1.27.1-2) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up libcurl4t64:arm64 (8.11.1-1+b1) ... Setting up libkdb5-10t64:arm64 (1.21.3-4) ... Setting up libcommons-validator-java (1:1.9.0-1) ... Setting up libgbm1:arm64 (24.3.3-1) ... Setting up python3-defusedxml (0.7.1-3) ... Setting up python3-charset-normalizer (3.4.0-1+b1) ... Setting up python3-alabaster (0.7.16-0.1) ... 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:arm64 (0.8.1-6) ... Setting up python3-typeguard (4.4.1-1) ... Setting up libgl1-mesa-dri:arm64 (24.3.3-1) ... Setting up debhelper (13.24.1) ... Setting up dconf-service (0.40.0-5) ... Setting up libibverbs-dev:arm64 (55.0-1) ... Setting up python3-inflect (7.3.1-2) ... Setting up python3-requests (2.32.3+dfsg-1) ... Setting up librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libmaven-clean-plugin-java (3.2.0-2) ... Setting up libhsa-runtime64-1:arm64 (6.1.2-2) ... Setting up libkadm5srv-mit12:arm64 (1.21.3-4) ... Setting up cmake (3.31.4-2) ... Setting up libplexus-archiver-java (4.6.1-1) ... Setting up libngs-java:arm64 (3.0.9+dfsg-7+b1) ... Setting up krb5-multidev:arm64 (1.21.3-4) ... Setting up python3-pkg-resources (75.6.0-1) ... Setting up libglx-mesa0:arm64 (24.3.3-1) ... Setting up libglx0:arm64 (1.7.0-1+b2) ... Setting up dconf-gsettings-backend:arm64 (0.40.0-5) ... Setting up python3-babel (2.16.0-1) ... update-alternatives: using /usr/bin/pybabel-python3 to provide /usr/bin/pybabel (pybabel) in auto mode Setting up libmaven-archiver-java (3.6.2-1) ... Setting up libkrb5-dev:arm64 (1.21.3-4) ... Setting up libgl1:arm64 (1.7.0-1+b2) ... Setting up libamdhip64-5 (5.7.1-5) ... Setting up libcurl4-openssl-dev:arm64 (8.11.1-1+b1) ... Setting up libcurlpp-dev:arm64 (0.8.1-6) ... Setting up libgtk-3-common (3.24.43-5) ... Setting up libucx0:arm64 (1.17.0+ds-3) ... Setting up libgtk-3-0t64:arm64 (3.24.43-5) ... Setting up libopenmpi40:arm64 (5.0.6-3) ... Setting up openmpi-bin (5.0.6-3) ... 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 liberror-prone-java (2.18.0-1) ... Setting up libwww-perl (6.77-1) ... Setting up devscripts (2.25.1) ... Setting up libguava-java (32.0.1-1) ... Setting up javahelper (0.80) ... Setting up libprotobuf-java (3.21.12-10) ... 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 (3.0.0-1) ... 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 (1.12.0-1) ... 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 (2.40-6) ... Processing triggers for systemd (257.2-2) ... 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_EV_Root_CA_1_2020.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:Entrust_Root_Certification_Authority_-_G4.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_RootCA11.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:Security_Communication_RootCA3.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:SwissSign_Silver_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:arm64 (21.0.6+7-1) ... Setting up ant (1.10.15-1) ... Setting up junit4 (4.13.2-5) ... Setting up openjdk-21-jdk-headless:arm64 (21.0.6+7-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/jwebserver to provide /usr/bin/jwebserver (jwebserver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/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 (1.11) ... 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~alpha2.1-4) ... Setting up openjdk-21-jdk:arm64 (21.0.6+7-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-arm64/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 (3.1.0+dfsg-2) ... Setting up libhtsjdk-java (4.1.3+dfsg-2) ... Setting up libmaven-plugin-tools-java (3.10.2-1) ... Setting up default-jdk (2:1.21-76) ... Setting up libsurefire-java (2.22.3-3) ... Processing triggers for sgml-base (1.31) ... Setting up docutils-common (0.21.2+dfsg-2) ... 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 maven-debian-helper (2.6.7) ... Processing triggers for sgml-base (1.31) ... Setting up python3-docutils (0.21.2+dfsg-2) ... Setting up python3-sphinx (8.1.3-4) ... Setting up libpmix-dev:arm64 (5.0.6-1) ... Setting up libopenmpi-dev:arm64 (5.0.6-3) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/openmpi/include to provide /usr/include/aarch64-linux-gnu/mpi (mpi-aarch64-linux-gnu) in auto mode Setting up mpi-default-dev (1.18) ... Processing triggers for ca-certificates (20241223) ... 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-1.5.4/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../genomicsdb_1.5.4-4_source.changes dpkg-buildpackage: info: source package genomicsdb dpkg-buildpackage: info: source version 1.5.4-4 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Pierre Gruet dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean --buildsystem=cmake --with javahelper debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4' # 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-1.5.4' 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-1.5.4' # 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=aarch64-linux-gnu cd obj-aarch64-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/aarch64-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=aarch64-linux-gnu .. -- The C compiler identification is GNU 14.2.0 -- The CXX compiler identification is GNU 14.2.0 -- 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/aarch64-linux-gnu/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Found CURL: /usr/lib/aarch64-linux-gnu/libcurl.so (found version "8.11.1") -- Looking for lzma_auto_decoder in /usr/lib/aarch64-linux-gnu/liblzma.so -- Looking for lzma_auto_decoder in /usr/lib/aarch64-linux-gnu/liblzma.so - found -- Looking for lzma_easy_encoder in /usr/lib/aarch64-linux-gnu/liblzma.so -- Looking for lzma_easy_encoder in /usr/lib/aarch64-linux-gnu/liblzma.so - found -- Looking for lzma_lzma_preset in /usr/lib/aarch64-linux-gnu/liblzma.so -- Looking for lzma_lzma_preset in /usr/lib/aarch64-linux-gnu/liblzma.so - found -- Found LibLZMA: /usr/lib/aarch64-linux-gnu/liblzma.so (found version "5.6.3") 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/aarch64-linux-gnu/libz.so (found version "1.3.1") -- Found libuuid: /usr/include -- Found OpenSSL: /usr/lib/aarch64-linux-gnu/libcrypto.so (found version "3.4.0") -- Found CURL: /usr/lib/aarch64-linux-gnu/libcurl.so (found version "8.11.1") -- 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/aarch64-linux-gnu/openmpi/lib/libmpi.so (found version "3.1") -- Found MPI_CXX: /usr/lib/aarch64-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 (6.6s) -- 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-1.5.4/obj-aarch64-linux-gnu make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4' debian/rules override_dh_auto_configure-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4' # 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=aarch64-linux-gnu cd obj-aarch64-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/aarch64-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=aarch64-linux-gnu .. -- Found CURL: /usr/lib/aarch64-linux-gnu/libcurl.so (found version "8.11.1") 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 CURL: /usr/lib/aarch64-linux-gnu/libcurl.so (found version "8.11.1") -- 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 (0.3s) -- Build files have been written to: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu # Configuring the Java part using Maven. # First we put the arch triplet in d/maven.properties for the tests. echo "build.triplet=aarch64-linux-gnu" > debian/maven.properties mv pom.xml pom.xml.old sed 's/\${genomicsdb\.version}/1.5.4/; 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-1.5.4/debian/maven-repo make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4' 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-1.5.4' dh_auto_build cd obj-aarch64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.4 -B/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/depend make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/depend make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f CMakeFiles/protobuf_ep.dir/build.make 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genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o [ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o [ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o [ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o [ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o [ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o [ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o [ 2%] Built target protobuf_ep [ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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-1.5.4/genomicsdb-htslib/kstring.c cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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 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-DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o -MF CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o.d -o CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/bcf_sr_sort.c cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong 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/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/hfile.c make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/resources /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/array/array.cc [ 4%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o [ 4%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o -MF CMakeFiles/genomicsdb-hts.dir/header.c.o.d -o CMakeFiles/genomicsdb-hts.dir/header.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/header.c cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/hfile_libcurl.c make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 4%] Generating source/header files from .proto files cd /build/reproducible-path/genomicsdb-1.5.4/src/resources && /usr/bin/protoc --cpp_out=/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources genomicsdb_coordinates.proto genomicsdb_callsets_mapping.proto genomicsdb_export_config.proto genomicsdb_import_config.proto genomicsdb_vid_mapping.proto [ 4%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -MF CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/hfile_net.c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/hfile_libcurl.c: In function 'libcurl_open': /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/hfile_libcurl.c:1335:9: warning: 'CURLINFO_CONTENT_LENGTH_DOWNLOAD' is deprecated: since 7.55.0. Use CURLINFO_CONTENT_LENGTH_DOWNLOAD_T [-Wdeprecated-declarations] 1335 | if (curl_easy_getinfo(fp->easy, CURLINFO_CONTENT_LENGTH_DOWNLOAD, | ^~ In file included from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/hfile_libcurl.c:47: /usr/include/aarch64-linux-gnu/curl/curl.h:2897:3: note: declared here 2897 | CURLINFO_CONTENT_LENGTH_DOWNLOAD | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 5%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o -MF CMakeFiles/genomicsdb-hts.dir/hts.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hts.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/hts.c [ 5%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -MF CMakeFiles/genomicsdb-hts.dir/hts_os.c.o.d -o CMakeFiles/genomicsdb-hts.dir/hts_os.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/hts_os.c make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 5%] Built target PROTOBUF_GENERATED_CXX_TARGET make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 5%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o -MF CMakeFiles/genomicsdb-hts.dir/md5.c.o.d -o CMakeFiles/genomicsdb-hts.dir/md5.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/md5.c [ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o -MF CMakeFiles/genomicsdb-hts.dir/multipart.c.o.d -o CMakeFiles/genomicsdb-hts.dir/multipart.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/multipart.c [ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o -MF CMakeFiles/genomicsdb-hts.dir/probaln.c.o.d -o CMakeFiles/genomicsdb-hts.dir/probaln.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/probaln.c [ 6%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-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-1.5.4/src/main/cpp/src/query_operations/variant_operations.cc [ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o -MF CMakeFiles/genomicsdb-hts.dir/realn.c.o.d -o CMakeFiles/genomicsdb-hts.dir/realn.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/realn.c [ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 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-ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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-1.5.4/genomicsdb-htslib/region.c [ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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-1.5.4/genomicsdb-htslib/sam.c [ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -MF CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o.d -o CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/synced_bcf_reader.c [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -MF CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o.d -o CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/vcf_sweep.c [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o -MF CMakeFiles/genomicsdb-hts.dir/tbx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/tbx.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/tbx.c [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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-1.5.4/genomicsdb-htslib/textutils.c [ 9%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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-1.5.4/genomicsdb-htslib/thread_pool.c [ 9%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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-1.5.4/genomicsdb-htslib/vcf.c [ 9%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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-1.5.4/genomicsdb-htslib/vcfutils.c [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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-1.5.4/genomicsdb-htslib/cram/cram_codecs.c [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/cram/cram_decode.c [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/cram/cram_encode.c [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/cram/cram_external.c In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/variant_operations.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/cram/cram_index.c [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/cram/cram_io.c [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/cram/cram_samtools.c [ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/cram/cram_stats.c [ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/cram/mFILE.c [ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/cram/open_trace_file.c [ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/cram/pooled_alloc.c [ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/cram/rANS_static.c [ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -MF CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib/cram/string_alloc.c [ 13%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc [ 13%] 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-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/variant_operations_columnar.cc [ 13%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-1.5.4/genomicsdb-tiledb/core/src/array/array_iterator.cc [ 13%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/array/array_read_state.cc [ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/array/array_schema.cc /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/variant_operations.cc: In member function 'virtual void AlleleCountOperator::operate_on_columnar_cell(const GenomicsDBColumnarCell&, const VariantQueryConfig&, const VariantArraySchema&)': /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/variant_operations.cc:984:36: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 984 | auto REF_ALT_pair = std::move(std::pair( | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 985 | std::string(REF_ptr, REF_length), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 986 | std::string(ALT_ptr+m_cell_ALT_offsets[ALT_idx], | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 987 | m_cell_ALT_offsets[ALT_idx+1]-m_cell_ALT_offsets[ALT_idx]-1))); //-1 to ignore delim char | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/variant_operations.cc:984:36: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:25: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/array/array_sorted_read_state.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/variant_operations_columnar.cc:23: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/array/array_sorted_write_state.cc [ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/c_api/tiledb.cc [ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-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-1.5.4/genomicsdb-tiledb/core/src/c_api/tiledb_utils.cc [ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/codec.cc [ 15%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/codec_blosc.cc [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/codec_filter.cc /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_INFO_fields(const Variant&)': /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:622:37: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 622 | auto stringified = std::move(m_field_handlers[bcf_ht_type]->stringify_2D_vector(*(BCF_INFO_GET_FIELD_INFO_PTR(curr_tuple)))); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:622:37: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:643:34: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 643 | auto result_str = std::move( | ~~~~~~~~~^ 644 | GET_HISTOGRAM_FIELD_HANDLER_PTR_FROM_TUPLE(curr_INFO_histogram_tuple)->stringify_histogram( | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 645 | length_descriptor.get_vcf_delimiter(0u), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 646 | length_descriptor.get_vcf_delimiter(1u) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 647 | )); | ~~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:643:34: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc: In member function 'void BroadCombinedGVCFOperator::handle_deletions(Variant&)': /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:1106:37: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 1106 | auto null_PL_ptr = std::move(std::unique_ptr(nullptr)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:1106:37: note: remove 'std::move' call [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/codec_filter_bit_shuffle.cc /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/c_api/tiledb.cc: In function 'int tiledb_array_set_schema(TileDB_ArraySchema*, const char*, const char**, int, int64_t, int, const int*, const int*, const int*, const int*, const int*, int, const char**, int, const void*, size_t, const void*, size_t, int, const int*)': /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/c_api/tiledb.cc:409:22: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 409 | (int*) malloc((attribute_num)*sizeof(int)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/c++/14/cstdlib:79, from /usr/include/c++/14/ext/string_conversions.h:43, from /usr/include/c++/14/bits/basic_string.h:4154, from /usr/include/c++/14/string:54, from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api/tiledb.h:44, from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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__ | ^~~~~~ [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/codec_filter_delta_encode.cc [ 17%] Linking C shared library libgenomicsdb-hts.so cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdb-hts.dir/link.txt --verbose=1 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/c_api/tiledb.cc: In function 'int tiledb_metadata_set_schema(TileDB_MetadataSchema*, const char*, const char**, int, int64_t, const int*, const int*, const int*, const int*)': /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/c_api/tiledb.cc:1131:22: warning: argument 1 range [18446744065119617024, 18446744073709551612] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1131 | (int*) malloc((attribute_num)*sizeof(int)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/stdlib.h:672:14: note: in a call to allocation function 'void* malloc(size_t)' declared here 672 | extern void *malloc (size_t __size) __THROW __attribute_malloc__ | ^~~~~~ /usr/bin/cc -fPIC -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/liblzma.so make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 17%] Built target genomicsdb-hts [ 18%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc [ 19%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/codec_gzip.cc [ 19%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/codec_lz4.cc [ 19%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/codec_rle.cc [ 20%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/codec_zstd.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc:23: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 20%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle/bitshuffle_core.c [ 20%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle/iochain.c [ 20%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/expressions/expression.cc [ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/fragment/book_keeping.cc [ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/fragment/fragment.cc [ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/fragment/read_state.cc [ 22%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/fragment/write_state.cc [ 22%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/metadata/metadata.cc [ 22%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/metadata/metadata_iterator.cc [ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/misc/error.cc [ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/misc/hilbert_curve.cc [ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/misc/mem_utils.cc [ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/misc/progress_bar.cc [ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/misc/uri.cc [ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/misc/utils.cc [ 25%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/storage/storage_buffer.cc [ 25%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_fs.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/storage/storage_fs.cc [ 25%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/storage/storage_manager.cc [ 25%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/storage/storage_manager_config.cc [ 26%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/storage/storage_posixfs.cc [ 26%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/storage -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4 -std=gnu11 -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/src/codec/external/lz4/lz4.c [ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc [ 26%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_cell.cc [ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_storage_manager.cc [ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_field_data.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_cell.cc:23: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:25: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/gt_remapper.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/gt_remapper_template_definition.h:25, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:23: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_storage_manager.cc:25: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:28: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_array_schema.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_field_data.cc:23: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_construct.h:61, from /usr/include/c++/14/bits/stl_tempbuf.h:61, from /usr/include/c++/14/memory:66, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 28%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc [ 28%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_array_schema.cc:25: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_array_schema.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_array_schema.cc:24: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/variant.cc:23: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 28%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/query_variants.cc [ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc [ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc [ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc [ 29%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/tiledb_loader_text_file.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/query_variants.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/query_variants.cc:23: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc:23: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 29%] Built target TILEDB_CORE_OBJECTS make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 29%] Linking CXX static library libgenomicsdb-tiledb.a cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -P CMakeFiles/tiledb_static.dir/cmake_clean_target.cmake cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_static.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:23: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /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-1.5.4/obj-aarch64-linux-gnu' [ 29%] Built target tiledb_static make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/load_operators.cc [ 31%] Linking CXX shared library libgenomicsdb-tiledb.so cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_shared.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/tiledb_loader_text_file.cc:32: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader_file_base.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader_text_file.h:33, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/tiledb_loader_text_file.cc:30: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/genomicsdb_importer.cc /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 31%] Built target tiledb_shared make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 31%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc: In member function 'std::vector GenomicsDBMultiDVectorField::parse_and_store_numeric(const char*, size_t)': /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 436 | auto total_size_of_multi_d_data_vec = std::move(GenomicsDBMultiDVectorField::parse_and_store_numeric( | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 437 | m_rw_field_data, *m_field_info_ptr, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 438 | str, str_length)); | ~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:436:50: note: remove 'std::move' call cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -MF CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d -o CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/array/test_array_schema.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/load_operators.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/genomicsdb_importer.h:25, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/genomicsdb_importer.cc:23: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:27: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 31%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/tiledb_loader_file_base.cc [ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/tiledb_loader.cc [ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/memory_measure.cc [ 32%] Linking CXX executable test_array_schema cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/tiledb_loader.cc:27: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/specfun.h:43, from /usr/include/c++/14/cmath:3906, from /usr/include/fmt/format.h:36, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/loader/tiledb_loader.cc:25: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 32%] Built target test_array_schema make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 32%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -MF CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o.d -o CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/benchmark/test_print_array_schema.cc [ 33%] Linking CXX executable test_print_array_schema cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_print_array_schema.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 33%] Built target test_print_array_schema make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 33%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -MF CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d -o CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/benchmark/test_print_book_keeping.cc [ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/histogram.cc [ 33%] Linking CXX executable test_print_book_keeping cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 33%] Built target test_print_book_keeping make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper_pb.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 34%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -MF CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o.d -o CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc [ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/lut.cc [ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/known_field_info.cc [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper_sql.cc [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/timer.cc [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/genomicsdb_logger.cc [ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/known_field_info.cc:27: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/gt_common.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/known_field_info.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/known_field_info.cc:24: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/vcf/vcf_adapter.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc:33: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/vid_mapper.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc:25: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void VidMapper::parse_string_length_descriptor(const char*, const char*, size_t, FieldLengthDescriptor&, size_t)': /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc:757:47: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 757 | auto length_value_upper_case_str = std::move(std::string(length_value_str)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc:757:47: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc: In member function 'void FileBasedVidMapper::common_constructor_initialization(const rapidjson::Value&)': /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc:1269:40: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 1269 | auto class_name = std::move(std::string(vcf_field_class_array[i].GetString())); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/vid_mapper.cc:1269:40: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/alleles_combiner.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/alleles_combiner_template_definition.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc:23: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc:23: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/vcf/vcf2binary.cc [ 37%] Building C object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/cc -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/vcf/hfile_genomicsdb.c [ 37%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/vcf/htslib_fs_adapter.cc [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/variant_query_config.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/vcf/vcf2binary.cc:29: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/vcf2binary.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/vcf/vcf2binary.cc:24: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 38%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/genomicsdb_config_base.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/variant_query_config.cc:26: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/algorithm:60, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/variant_query_config.cc:24: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/genomicsdb_config_base.cc: In member function 'const bool GenomicsDBConfigBase::has_array_name(int) const': /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/genomicsdb_config_base.cc:101:53: warning: comparison of integer expressions of different signedness: 'std::vector >::size_type' {aka 'long unsigned int'} and 'const int' [-Wsign-compare] 101 | (!m_single_array_name && m_array_names.size() > rank)) { | ~~~~~~~~~~~~~~~~~~~~~^~~~~~ [ 39%] Linking CXX executable test_sparse_array_benchmark cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 39%] Built target test_sparse_array_benchmark make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 39%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -MF CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d -o CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc [ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/json_config.cc [ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/pb_config.cc [ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/annotation_service.cc [ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb.cc [ 41%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb_field.cc /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/json_config.cc: In member function 'rapidjson::Document GenomicsDBConfigBase::read_from_file(const std::string&, int)': /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/json_config.cc:193:43: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 193 | rapidjson::Document json_doc = std::move(parse_json_file(filename)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/json_config.cc:193:43: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/json_config.cc: In member function 'void GenomicsDBImportConfig::read_from_file(const std::string&, int)': /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/json_config.cc:704:43: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 704 | rapidjson::Document json_doc = std::move(GenomicsDBConfigBase::read_from_file(filename, rank)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/config/json_config.cc:704:43: note: remove 'std::move' call [ 41%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb_plink.cc [ 41%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb_utils.cc [ 41%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb_json_processor.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb.cc:46: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api/genomicsdb_exception.h:37, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api/genomicsdb.h:37, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb.cc:34: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 42%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources/genomicsdb_coordinates.pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb_plink.cc:40: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api/genomicsdb_exception.h:37, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api/genomicsdb.h:37, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api/genomicsdb_plink.h:35, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb_plink.cc:34: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 42%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources/genomicsdb_callsets_mapping.pb.cc [ 42%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources/genomicsdb_export_config.pb.cc [ 43%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources/genomicsdb_import_config.pb.cc [ 43%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -MF CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o.d -o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources/genomicsdb_vid_mapping.pb.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 44%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -MF CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o.d -o CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc [ 45%] Linking CXX executable test_array_iterator cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_iterator.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 45%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -MF CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d -o CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/c_api/test_dense_array_api.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 45%] Built target test_array_iterator make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -MF CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o.d -o CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/c_api/test_sparse_array_api.cc In file included from /usr/include/c++/14/bits/basic_string.h:47, from /usr/include/c++/14/string:54: In function 'constexpr std::size_t std::__sv_check(size_t, size_t, const char*)', inlined from 'constexpr std::basic_string_view<_CharT, _Traits> std::basic_string_view<_CharT, _Traits>::substr(size_type, size_type) const [with _CharT = char; _Traits = std::char_traits]' at /usr/include/c++/14/string_view:336:25, inlined from 'std::string_view get_segment(std::string_view, int)' at /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb.cc:820:20: /usr/include/c++/14/string_view:72:5: warning: 'pos' may be used uninitialized [-Wmaybe-uninitialized] 72 | if (__pos > __size) | ^~ /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb.cc: In function 'std::string_view get_segment(std::string_view, int)': /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/src/api/genomicsdb.cc:807:26: note: 'pos' was declared here 807 | std::string::size_type pos; | ^~~ make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -MF CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d -o CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/c_api/test_tiledb_utils.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -MF CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d -o CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/codec/test_codec.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -MF CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o.d -o CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/codec/test_codec_filter.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DCATCH2_MAJOR_VERSION=3 -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -MF CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d -o CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/expressions/test_expressions.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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-DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -MF CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o.d -o CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/expressions/test_filter_api.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make 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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -MF CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o.d -o CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_mem_utils.cc 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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make 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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -MF CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o.d -o CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_uri.cc [ 48%] Linking CXX executable test_codec cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec.dir/link.txt --verbose=1 [ 48%] Linking CXX executable test_codec_filter cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec_filter.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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-DTILEDB_TEST_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/benchmark -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -MF CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o.d -o CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 49%] Built target test_codec make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 50%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o cd 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'/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 50%] Built target test_mem_utils make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f 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-I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/array -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/c_api -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/codec -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/expressions -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/fragment -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/metadata -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/misc -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/../core/include/storage -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -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-1.5.4/genomicsdb-tiledb/test/src/storage_manager/test_storage_buffer.cc [ 50%] Linking CXX executable test_filter_api cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_filter_api.dir/link.txt --verbose=1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 50%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -MF CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o.d -o CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_3d.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 50%] Built target test_filter_api make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 50%] 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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_aio_read_dense.cc [ 51%] Linking CXX executable tiledb_array_3d cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_3d.dir/link.txt --verbose=1 [ 51%] Linking CXX executable tiledb_array_aio_read_dense cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_read_dense.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 51%] Built target tiledb_array_3d make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 52%] 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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -MF CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d -o CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_aio_write_dense.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 52%] Built target tiledb_array_aio_read_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 52%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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 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Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 53%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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 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'/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 53%] Built target tiledb_array_aio_write_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 53%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -MF CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d -o CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_create_sparse.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 53%] Built target tiledb_array_consolidate make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 53%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -MF CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o.d -o CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_iterator_dense.cc [ 53%] Linking CXX executable tiledb_array_create_dense cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_dense.dir/link.txt --verbose=1 [ 54%] Linking CXX executable tiledb_array_create_sparse cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_sparse.dir/link.txt --verbose=1 [ 54%] Linking CXX executable tiledb_array_iterator_dense cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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 test_uri cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_uri.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 54%] Built target tiledb_array_create_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 55%] Built target test_uri make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -MF CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d -o CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse_filter.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 55%] Built target tiledb_array_create_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -MF CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d -o CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_dense.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 55%] Built target tiledb_array_iterator_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -MF CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d -o CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_sparse.cc [ 56%] Linking CXX executable tiledb_array_iterator_sparse cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse.dir/link.txt --verbose=1 [ 56%] Linking CXX executable test_array_schema_api cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema_api.dir/link.txt --verbose=1 [ 57%] Linking CXX executable tiledb_array_iterator_sparse_filter cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse_filter.dir/link.txt --verbose=1 [ 57%] Linking CXX executable tiledb_array_parallel_consolidate_dense cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.txt --verbose=1 [ 57%] Linking CXX executable tiledb_array_parallel_consolidate_sparse cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 57%] Built target tiledb_array_iterator_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' In file included from /usr/include/string.h:548, from /usr/include/c++/14/cstring:43, from /usr/include/catch2/internal/catch_stringref.hpp:16, from /usr/include/catch2/interfaces/catch_interfaces_capture.hpp:13, from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/include/catch2/catch.h:39, from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:39: In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:184:11: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:10: note: source object 'j' of size 8 181 | double j = 0.1, k = 0.2; | ^ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:186:11: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:191:11: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:10: note: source object 'j' of size 8 181 | double j = 0.1, k = 0.2; | ^ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:192:11: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:196:11: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:10: note: source object 'j' of size 8 181 | double j = 0.1, k = 0.2; | ^ In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void CATCH2_INTERNAL_TEST_0()' at /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:198:11: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:29:33: warning: 'void* __builtin_memcpy(void*, const void*, long unsigned int)' reading 16 bytes from a region of size 8 [-Wstringop-overread] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function 'void CATCH2_INTERNAL_TEST_0()': /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:181:19: note: source object 'k' of size 8 181 | double j = 0.1, k = 0.2; | ^ /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 57%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -MF CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_1.cc [ 57%] Built target tiledb_array_iterator_sparse_filter make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_2.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 58%] Built target test_array_schema_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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -MF CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_mpi_io_dense.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 58%] Built target tiledb_array_parallel_consolidate_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_1.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 58%] Built target tiledb_array_parallel_consolidate_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 59%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_2.cc [ 59%] Linking CXX executable tiledb_array_parallel_read_dense_1 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.txt --verbose=1 [ 59%] Linking CXX executable tiledb_array_parallel_read_dense_2 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.txt --verbose=1 [ 60%] Linking CXX executable tiledb_array_parallel_read_mpi_io_dense cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 60%] Built target tiledb_array_parallel_read_mpi_io_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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 60%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_1.cc [ 60%] Linking CXX executable tiledb_array_parallel_read_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.txt --verbose=1 [ 60%] Linking CXX executable tiledb_array_parallel_read_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.txt --verbose=1 [ 61%] Linking CXX executable test_dense_array_api cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 61%] Built target tiledb_array_parallel_read_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 61%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_2.cc [ 61%] Built target tiledb_array_parallel_read_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/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 61%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_1.cc [ 62%] Linking CXX executable tiledb_array_parallel_write_dense_1 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 62%] Built target tiledb_array_parallel_read_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 62%] Built target tiledb_array_parallel_read_sparse_2 [ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_2.cc make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_primitive.cc [ 63%] Linking CXX executable tiledb_array_parallel_write_dense_2 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.txt --verbose=1 [ 64%] Linking CXX executable tiledb_array_parallel_write_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 64%] Built target test_dense_array_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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 64%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -MF CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o.d -o CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_1.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 64%] Built target tiledb_array_parallel_write_dense_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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 64%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -MF CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d -o CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_2.cc [ 64%] Linking CXX executable tiledb_array_parallel_write_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.txt --verbose=1 [ 64%] Linking CXX executable tiledb_array_primitive cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_primitive.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 64%] Built target tiledb_array_parallel_write_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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 65%] Linking CXX executable tiledb_array_read_dense_1 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_1.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 65%] Built target tiledb_array_parallel_write_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" [ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -MF CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d -o CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_3.cc make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_sorted.cc [ 66%] Linking CXX executable tiledb_array_read_dense_2 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 66%] Built target tiledb_array_parallel_write_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 66%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_1.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 66%] Built target tiledb_array_primitive make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 67%] Linking CXX executable test_tiledb_utils cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tiledb_utils.dir/link.txt --verbose=1 [ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_2.cc [ 67%] Linking CXX executable tiledb_array_read_dense_3 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_3.dir/link.txt --verbose=1 [ 68%] Linking CXX executable tiledb_array_read_dense_sorted cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_dense_sorted.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 68%] Built target tiledb_array_read_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 68%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_1.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 68%] Built target tiledb_array_read_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 69%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -MF CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_2.cc [ 69%] Linking CXX executable tiledb_array_read_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_1.dir/link.txt --verbose=1 [ 70%] Linking CXX executable tiledb_array_read_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 70%] Linking CXX executable tiledb_array_read_sparse_filter_1 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.txt --verbose=1 [ 70%] Built target tiledb_array_read_dense_sorted 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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 70%] Built target 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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o [ 70%] Built target test_tiledb_utils 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 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -MF CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d -o CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_sorted.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -MF CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d -o CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_1.cc [ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -MF CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d -o CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_2.cc [ 71%] Linking CXX executable tiledb_array_read_sparse_filter_2 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 71%] Built target tiledb_array_read_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/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -MF CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_1.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 71%] Built target tiledb_array_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -MF CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_2.cc [ 73%] Linking CXX executable tiledb_array_read_sparse_sorted cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.txt --verbose=1 [ 73%] Linking CXX executable tiledb_array_update_dense_2 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_2.dir/link.txt --verbose=1 [ 73%] Linking CXX executable tiledb_array_update_dense_1 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_dense_1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 73%] Built target tiledb_array_read_sparse_filter_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 73%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -MF CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d -o CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 73%] Built target tiledb_array_read_sparse_filter_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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 73%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -MF CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d -o CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_2.cc [ 73%] Linking CXX executable tiledb_array_update_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_1.dir/link.txt --verbose=1 [ 73%] Linking CXX executable tiledb_array_update_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_update_sparse_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 73%] Built target tiledb_array_read_sparse_sorted 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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -MF CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o.d -o CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_sorted.cc [ 75%] Linking CXX executable tiledb_array_write_dense_1 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_1.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 75%] Built target tiledb_array_update_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -MF CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_1.cc [ 75%] Built target tiledb_array_update_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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -MF CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_2.cc [ 75%] Linking CXX executable tiledb_array_write_dense_2 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_2.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 75%] Built target tiledb_array_update_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -MF CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_3.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 75%] Built target tiledb_array_update_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -MF CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d -o CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_4.cc [ 75%] Linking CXX executable tiledb_array_write_dense_sorted cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_dense_sorted.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 76%] Linking CXX executable tiledb_array_write_sparse_1 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_1.dir/link.txt --verbose=1 [ 76%] Built target tiledb_array_write_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" [ 76%] Linking CXX executable tiledb_array_write_sparse_2 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_2.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -MF CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d -o CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_catching_errors.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 77%] Built target tiledb_array_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" [ 78%] Linking CXX executable tiledb_array_write_sparse_3 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_3.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -MF CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d -o CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_clear_delete_move.cc [ 78%] Linking CXX executable tiledb_array_write_sparse_4 cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_write_sparse_4.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 78%] Linking CXX executable tiledb_catching_errors make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_catching_errors.dir/link.txt --verbose=1 [ 78%] Built target tiledb_array_write_dense_sorted make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 78%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -MF CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d -o CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_config.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 79%] Linking CXX executable tiledb_clear_delete_move make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_clear_delete_move.dir/link.txt --verbose=1 [ 79%] Built target tiledb_array_write_sparse_1 [ 79%] Built target tiledb_array_write_sparse_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-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o [ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -MF CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d -o CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_ls.cc cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -MF CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o.d -o CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_delete.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 80%] Built target tiledb_array_write_sparse_3 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -MF CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d -o CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_ls_workspaces.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 80%] Built target tiledb_array_write_sparse_4 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -MF CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d -o CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_consolidate.cc [ 80%] Linking CXX executable tiledb_config cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_config.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 80%] Built target tiledb_catching_errors make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -MF CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d -o CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_create.cc [ 81%] Linking CXX executable tiledb_ls cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 81%] Built target tiledb_clear_delete_move make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 82%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -MF CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o.d -o CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_iterator.cc [ 82%] Linking CXX executable tiledb_ls_workspaces cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls_workspaces.dir/link.txt --verbose=1 [ 83%] Linking CXX executable tiledb_metadata_consolidate cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_consolidate.dir/link.txt --verbose=1 [ 83%] Linking CXX executable tiledb_delete cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_delete.dir/link.txt --verbose=1 [ 83%] Linking CXX executable tiledb_metadata_create cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_create.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 83%] Built target tiledb_config make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 83%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -MF CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d -o CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_primitive.cc [ 83%] Linking CXX executable tiledb_metadata_iterator cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_iterator.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 83%] Built target tiledb_ls make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 83%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -MF CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d -o CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_read.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 83%] Built target tiledb_ls_workspaces make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 84%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -MF CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o.d -o CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_update.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 84%] Built target tiledb_metadata_consolidate make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make 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genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -MF CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d -o CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_metadata_write.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 84%] Built target tiledb_delete make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" [ 85%] Linking CXX executable tiledb_metadata_primitive cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_primitive.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 85%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/usr/include/muparserx -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -Wno-literal-suffix -fopenmp -std=c++17 -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -MF CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o.d -o CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/src/tiledb_workspace_group_create.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 85%] Built target tiledb_metadata_create make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 85%] Linking CXX shared library libgenomicsdb.so cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledbgenomicsdb.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_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 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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[ 85%] Linking CXX executable tiledb_metadata_read cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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 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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 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CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_utils.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_json_processor.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets[ 85%] Linking CXX executable tiledb_metadata_write cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_write.dir/link.txt --verbose=1 [ 86%] Linking CXX executable tiledb_workspace_group_create cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_workspace_group_create.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 86%] Built target tiledb_metadata_primitive /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 86%] Built target tiledb_metadata_read [ 86%] Linking CXX executable test_utils cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 86%] Built target tiledb_metadata_update /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 86%] Built target tiledb_metadata_write /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 86%] Built target tiledb_workspace_group_create [ 86%] Linking CXX executable test_storage_buffer cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_storage_buffer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 86%] Built target test_utils _mapping.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o /usr/bin/ranlib libgenomicsdb.a make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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 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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" 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tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build [ 86%] Building CXX object tools/CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/build cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o -MF CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o.d -o CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf2genomicsdb_init.cc make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 86%] Building CXX object src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat 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/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/ctest_main.cc.o -MF CMakeFiles/ctests.dir/src/ctest_main.cc.o.d -o CMakeFiles/ctests.dir/src/ctest_main.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/ctest_main.cc cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb 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-D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -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-1.5.4/src/test/cpp/src/ctest_main.cc cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -MF CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o.d -o CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf2genomicsdb.cc cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -MF CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o.d -o CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/tools/src/create_genomicsdb_workspace.cc [ 87%] Building CXX object tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -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-1.5.4/tools/src/consolidate_genomicsdb_array.cc _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_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/aarch64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core: /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/liblzma.so cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 87%] Built target tiledbgenomicsdb make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 88%] Building CXX object tools/CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o -MF CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o.d -o CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/tools/src/gt_mpi_gather.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 88%] Built target test_storage_buffer make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 88%] Building CXX object tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -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-1.5.4/tools/src/vcfdiff.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/tools/src/gt_mpi_gather.cc:30: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/tools/src/gt_mpi_gather.cc:24: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.4/tools/include/vcfdiff.h:31, from /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc:25: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/tools/include/vcfdiff.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.4/tools/src/consolidate_genomicsdb_array.cc:29: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/tools/src/consolidate_genomicsdb_array.cc:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 88%] Linking CXX executable test_posixfs cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_posixfs.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf2genomicsdb.cc:26: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_algobase.h:65, from /usr/include/c++/14/bits/hashtable_policy.h:36, from /usr/include/c++/14/bits/hashtable.h:35, from /usr/include/c++/14/bits/unordered_map.h:33, from /usr/include/c++/14/unordered_map:41, from /usr/include/c++/14/functional:63, from /usr/include/spdlog/common.h:13, from /usr/include/spdlog/spdlog.h:12, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/genomicsdb_logger.h:41, from /build/reproducible-path/genomicsdb-1.5.4/tools/include/common.h:27, from /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf2genomicsdb.cc:25: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 88%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_config.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -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-1.5.4/src/test/cpp/src/test_config.cc [ 89%] Building CXX object src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -MF CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o.d -o CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_genomicsdb_api.cc /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc: In constructor 'VCFDiffFile::VCFDiffFile(const std::string&, const std::string&)': /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc:83:41: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 83 | std::string field_name = std::move(std::string(bcf_hdr_int2id(m_hdr, BCF_DT_ID, i))); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc:83:41: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc: In member function 'void VCFDiffFile::compare_line(const bcf_hdr_t*, bcf1_t*)': /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc:591:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 591 | auto gold_ID_set = std::move(get_ID_set(gold_line)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc:591:33: note: remove 'std::move' call /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc:592:33: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 592 | auto test_ID_set = std::move(get_ID_set(m_line)); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcfdiff.cc:592:33: note: remove 'std::move' call /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 89%] Built target test_posixfs make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 90%] Building CXX object tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/tools/include -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o -MF CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o.d -o CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf_histogram.cc /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf2genomicsdb.cc: In function 'int main(int, char**)': /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf2genomicsdb.cc:165:45: warning: moving a temporary object prevents copy elision [-Wpessimizing-move] 165 | auto loader_json_config_file = std::move(std::string(argv[optind])); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf2genomicsdb.cc:165:45: note: remove 'std::move' call In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf_histogram.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/vcf2binary.h:26, from /build/reproducible-path/genomicsdb-1.5.4/tools/src/vcf_histogram.cc:23: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 90%] Linking CXX executable test_sparse_array_api cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_sparse_array_api.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 90%] Built target test_sparse_array_api make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/example /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 90%] Building CXX object example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -MF CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o.d -o CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/example/src/test_genomicsdb_bcf_generator.cc [ 90%] Linking CXX executable test_expressions cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_expressions.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -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/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/libCatch2.a -lmuparserx make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 90%] Built target test_expressions make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/example /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 91%] Building CXX object example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -MF CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o.d -o CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/example/src/test_genomicsdb_importer.cc [ 91%] Linking CXX executable gt_mpi_gather In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /build/reproducible-path/genomicsdb-1.5.4/example/src/test_genomicsdb_bcf_generator.cc:25: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/example/src/test_genomicsdb_bcf_generator.cc:24: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/gt_mpi_gather.dir/link.txt --verbose=1 [ 91%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -MF CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o.d -o CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_non_diploid_mapper.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/gt_mpi_gather.dir/link.d CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o -o gt_mpi_gather -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/usr/lib/aarch64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 91%] Built target gt_mpi_gather make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 91%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -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-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/genomicsdb_importer.h:25, from /build/reproducible-path/genomicsdb-1.5.4/example/src/test_genomicsdb_importer.cc:26: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/example/src/test_genomicsdb_importer.cc:25: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Linking CXX executable test_genomicsdb_bcf_generator cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_bcf_generator.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_non_diploid_mapper.cc:26: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/catch2/interfaces/catch_interfaces_capture.hpp:11, from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_non_diploid_mapper.cc:24: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:29: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api/tiledb.h:44, from /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api/tiledb_utils.h:39, from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:25: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 92%] Linking CXX executable create_genomicsdb_workspace cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/create_genomicsdb_workspace.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/create_genomicsdb_workspace.dir/link.d CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -o create_genomicsdb_workspace -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/usr/lib/aarch64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 92%] Built target create_genomicsdb_workspace [ 92%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -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-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -o test_genomicsdb_bcf_generator -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/usr/lib/aarch64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 92%] Built target test_genomicsdb_bcf_generator [ 92%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -MF CMakeFiles/ctests.dir/src/test_multid_vector.cc.o.d -o CMakeFiles/ctests.dir/src/test_multid_vector.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_multid_vector.cc [ 93%] Linking CXX executable vcfdiff cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfdiff.dir/link.txt --verbose=1 [ 93%] Linking CXX executable test_genomicsdb_demo cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_demo.dir/link.txt --verbose=1 [ 93%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -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-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBQuery.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcfdiff.dir/link.d CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o -o vcfdiff -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/usr/lib/aarch64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 93%] Built target vcfdiff [ 94%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/load_operators.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader/tiledb_loader.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:24: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/vcf2binary.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:23: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_multid_vector.cc:27: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/catch2/interfaces/catch_interfaces_capture.hpp:11, from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_multid_vector.cc:24: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 95%] Linking CXX executable consolidate_genomicsdb_array cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_demo.dir/link.d CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o -o test_genomicsdb_demo -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/usr/lib/aarch64-linux-gnu/openmpi/lib: ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 95%] Built target test_genomicsdb_demo [ 95%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -I/build/reproducible-path/genomicsdb-1.5.4/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIC -MD -MT src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -MF CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d -o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_jni_init.cc [ 96%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o -MF CMakeFiles/ctests.dir/src/test_pb.cc.o.d -o CMakeFiles/ctests.dir/src/test_pb.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_pb.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc:25: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/c++/14/bits/locale_classes.h:40, from /usr/include/c++/14/bits/ios_base.h:41, from /usr/include/c++/14/ios:44, from /usr/include/c++/14/ostream:40, from /usr/include/c++/14/iostream:41, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils/headers.h:32, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 96%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o -MF CMakeFiles/ctests.dir/src/test_logger.cc.o.d -o CMakeFiles/ctests.dir/src/test_logger.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_logger.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/consolidate_genomicsdb_array.dir/link.d CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -o consolidate_genomicsdb_array -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/usr/lib/aarch64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 96%] Built target consolidate_genomicsdb_array [ 96%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o -MF CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o.d -o CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc [ 97%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -MF CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o.d -o CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_htslib_plugin.cc [ 97%] Linking CXX executable vcf_histogram cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf_histogram.dir/link.txt --verbose=1 [ 98%] Linking CXX executable vcf2genomicsdb cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb.dir/link.txt --verbose=1 In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc:31: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/catch2/interfaces/catch_interfaces_capture.hpp:11, from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc:29: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 98%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o -MF CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o.d -o CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_alleles_combiner.cc /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniInitializeGenomicsDBImporterObject(JNIEnv*, jobject, jstring, jint)': /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:102:3: warning: control reaches end of non-void function [-Wreturn-type] 102 | } | ^ /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jlong Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniSetupGenomicsDBLoader(JNIEnv*, jobject, jlong, jstring)': /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:159:3: warning: control reaches end of non-void function [-Wreturn-type] 159 | } | ^ /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc: In function 'jboolean Java_org_genomicsdb_importer_GenomicsDBImporterJni_jniImportBatch(JNIEnv*, jobject, jlong, jlongArray)': /build/reproducible-path/genomicsdb-1.5.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:231:3: warning: control reaches end of non-void function [-Wreturn-type] 231 | } | ^ [ 98%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o -MF CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o.d -o CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_gt_remapper.cc [ 98%] Linking CXX executable api_tests cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -pie -Wl,--dependency-file=CMakeFiles/vcf_histogram.dir/link.d CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o -o vcf_histogram -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/usr/lib/aarch64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 98%] Built target vcf_histogram [ 99%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o -MF CMakeFiles/ctests.dir/src/test_bgen.cc.o.d -o CMakeFiles/ctests.dir/src/test_bgen.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_bgen.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/usr/lib/aarch64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 99%] Built target vcf2genomicsdb [ 99%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o -MF CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d -o CMakeFiles/ctests.dir/src/test_query_variants.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_query_variants.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/api_tests.dir/link.d CMakeFiles/api_tests.dir/src/ctest_main.cc.o CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -o api_tests -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/usr/lib/aarch64-linux-gnu/openmpi/lib ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/libCatch2.a /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/cmake -E tar xzf /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/../inputs/test.tgz make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 99%] Built target api_tests [ 99%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/build/reproducible-path/genomicsdb-1.5.4/tests/\" -DGENOMICSDB_VERSION=\"1.5.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb -I/build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/loader -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/query_operations -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/utils -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/vcf -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/config -I/build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/api -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/include -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/INTERFACE -I/build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/Catch2/single_include -I/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -std=c++17 -fPIE -MD -MT src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -MF CMakeFiles/ctests.dir/src/test_mem_utils.cc.o.d -o CMakeFiles/ctests.dir/src/test_mem_utils.cc.o -c /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_mem_utils.cc In file included from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:30, from /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/query_variants.h:28, from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_query_variants.cc:31: /build/reproducible-path/genomicsdb-1.5.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: 'template struct std::iterator' is deprecated [-Wdeprecated-declarations] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/14/bits/stl_iterator_base_funcs.h:66, from /usr/include/c++/14/string:47, from /usr/include/catch2/interfaces/catch_interfaces_capture.hpp:11, from /usr/include/catch2/benchmark/catch_benchmark.hpp:19, from /usr/include/catch2/benchmark/catch_benchmark_all.hpp:24, from /usr/include/catch2/catch_all.hpp:25, from /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp/src/test_query_variants.cc:28: /usr/include/c++/14/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 99%] Linking CXX executable test_genomicsdb_importer cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_importer.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -Wl,--dependency-file=CMakeFiles/test_genomicsdb_importer.dir/link.d CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -o test_genomicsdb_importer -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/usr/lib/aarch64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 99%] Built target test_genomicsdb_importer [ 99%] Linking CXX shared library libgenomicsdbjni.so cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdbjni.dir/link.txt --verbose=1 [ 99%] Linking CXX executable vcf2genomicsdb_init cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb_init.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -Wl,--dependency-file=CMakeFiles/genomicsdbjni.dir/link.d -Wl,-z,relro -Wl,-z,now -z noexecstack -z relro -z now -shared -Wl,-soname,libgenomicsdbjni.so -o libgenomicsdbjni.so CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o -Wl,-rpath,/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/aarch64-linux-gnu/openmpi/lib:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib libgenomicsdb.so.1.5.4 ../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 99%] Built target genomicsdbjni /usr/bin/c++ -g -O2 -ffile-prefix-map=/build/reproducible-path/genomicsdb-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/usr/lib/aarch64-linux-gnu/openmpi/lib: ../src/main/libgenomicsdb.a ../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 99%] Built target vcf2genomicsdb_init [100%] Linking CXX executable ctests cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/usr/lib/aarch64-linux-gnu/openmpi/lib ../../main/libgenomicsdb.a ../../../genomicsdb-tiledb/core/libgenomicsdb-tiledb.so ../../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.10.1.0 /usr/lib/libCatch2.a /usr/lib/aarch64-linux-gnu/libz.so /usr/lib/aarch64-linux-gnu/libmuparserx.so /usr/lib/aarch64-linux-gnu/libbz2.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /usr/lib/aarch64-linux-gnu/libuuid.so -ldl make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [100%] Built target ctests make[3]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4' debian/rules override_dh_auto_build-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4' # 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-1.5.4 -Dclassworlds.conf=/etc/maven/m2-debian.conf -Dproperties.file.manual=/build/reproducible-path/genomicsdb-1.5.4/debian/maven.properties org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.4/debian -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.4/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 1.5.4 [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-1.5.4/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-1.5.4/build/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.4/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.4/src/main/scala added. [INFO] [INFO] --- resources:3.3.1:resources (default-resources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/java/org/genomicsdb/reader/GenomicsDBTimer.java:[37,14] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[79,39] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[206,31] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/src/main/java/org/genomicsdb/model/ImportConfig.java:[76,36] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[224,46] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[99,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[109,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[54,27] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[139,58] 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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/build/test [INFO] [copy] Copying 1 file to /build/reproducible-path/genomicsdb-1.5.4/build/test [INFO] [gunzip] Expanding test.tar.gz to /build/reproducible-path/genomicsdb-1.5.4/build/test/test.tar [INFO] [untar] Expanding: /build/reproducible-path/genomicsdb-1.5.4/build/test/test.tar into /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/build/genomicsdb-1.5.4.jar [INFO] [INFO] --- jar:3.3.0:jar (main) @ genomicsdb --- [INFO] Building jar: /build/reproducible-path/genomicsdb-1.5.4/build/genomicsdb-1.5.4-main.jar [INFO] [INFO] --- jar:3.3.0:jar (spark) @ genomicsdb --- [INFO] Building jar: /build/reproducible-path/genomicsdb-1.5.4/build/genomicsdb-1.5.4-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-1.5.4/build [INFO] [move] Moving 1 file to /build/reproducible-path/genomicsdb-1.5.4/build [INFO] Executed tasks [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 6.664 s [INFO] Finished at: 2026-02-25T11:38:18-12:00 [INFO] ------------------------------------------------------------------------ make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4' jh_build -O--buildsystem=cmake debian/rules override_dh_auto_test-arch make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4' dh_auto_test -a || true cd obj-aarch64-linux-gnu && make -j12 test ARGS\+=--verbose ARGS\+=-j12 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j12 UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/DartConfiguration.tcl Test project /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_array_schema 1: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_print_array_schema 2: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_print_book_keeping 3: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_sparse_array_benchmark 4: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_array_iterator 5: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_array_schema_api 6: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_dense_array_api 7: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_sparse_array_api 8: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_tiledb_utils 9: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_codec 10: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_codec_filter 11: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_expressions 12: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 12: Test timeout computed to be: 10000000 1: Randomness seeded to: 3635959773 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-1.5.4/obj-aarch64-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: 2236516651 4: =============================================================================== 4: test cases: 1 | 1 passed 4: assertions: - none - 4: 5: Randomness seeded to: 1024879218 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestZnmjXQ/array_iterator_test_ws/test_sparse_array_it_full/.__e2cefd58-9ec9-4266-a8e3-c4e2dc3299e1281473866425472_1772062700125/ATTR_INT32.tdb. 5: 5: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 5: test_array_iterator is a Catch2 v3.7.1 host application. 5: Run with -? for options 5: 5: ------------------------------------------------------------------------------- 5: Test sparse array iterator 5: ------------------------------------------------------------------------------- 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:194 5: ............................................................................... 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: 5: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestZnmjXQ/array_iterator_test_ws/test_sparse_array_it_full/.__e2cefd58-9ec9-4266-a8e3-c4e2dc3299e1281473866425472_1772062700125/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:108: FAILED: 5: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: 5: CHECK( i == nval ) 5: with expansion: 5: 0 == 8 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestG90rl5/array_iterator_test_ws/test_sparse_array_it_reset/.__febc7636-3841-4c14-94a2-a63ae506900b281473866425472_1772062700126/ATTR_INT32.tdb. 5: ------------------------------------------------------------------------------- 5: Test sparse array iterator with reset 5: ------------------------------------------------------------------------------- 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:201 5: ............................................................................... 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: 5: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestG90rl5/array_iterator_test_ws/test_sparse_array_it_reset/.__febc7636-3841-4c14-94a2-a63ae506900b281473866425472_1772062700126/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:108: FAILED: 5: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: 5: CHECK( i == nval ) 5: with expansion: 5: 0 == 8 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: 5: CHECK( i == nval ) 5: with expansion: 5: 0 == 8 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTeste4Cjt3/array_iterator_test_ws/test_sparse_array_it_reset_subarray/.__0c26dca4-3876-47d7-a890-f0537f02dbc9281473866425472_1772062700127/ATTR_INT32.tdb. 5: ------------------------------------------------------------------------------- 5: Test sparse array iterator with reset subarray 5: ------------------------------------------------------------------------------- 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:211 5: ............................................................................... 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: 5: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTeste4Cjt3/array_iterator_test_ws/test_sparse_array_it_reset_subarray/.__0c26dca4-3876-47d7-a890-f0537f02dbc9281473866425472_1772062700127/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:108: FAILED: 5: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: 5: CHECK( i == nval ) 5: with expansion: 5: 0 == 8 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: 5: CHECK( i == nval ) 5: with expansion: 5: 0 == 5 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestXTSU7e/array_iterator_test_ws/test_sparse_array_it_filter/.__ef3e0cf0-3b3a-48ec-a927-4c0c86b74afe281473866425472_1772062700128/ATTR_INT32.tdb. 5: ------------------------------------------------------------------------------- 5: Test sparse array iterator with filter 5: ------------------------------------------------------------------------------- 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:221 5: ............................................................................... 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: 5: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestXTSU7e/array_iterator_test_ws/test_sparse_array_it_filter/.__ef3e0cf0-3b3a-48ec-a927-4c0c86b74afe281473866425472_1772062700128/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:108: FAILED: 5: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: 5: CHECK( i == nval ) 5: with expansion: 5: 0 == 4 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestLVFMbn/array_iterator_test_ws/test_sparse_array_it_filter_reset/.__95fce13f-ca24-4ca3-8233-e58ef4de4086281473866425472_1772062700130/ATTR_INT32.tdb. 5: ------------------------------------------------------------------------------- 5: Test sparse array iterator with filter with subarray 5: ------------------------------------------------------------------------------- 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:228 5: ............................................................................... 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: 5: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestLVFMbn/array_iterator_test_ws/test_sparse_array_it_filter_reset/.__95fce13f-ca24-4ca3-8233-e58ef4de4086281473866425472_1772062700130/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:108: FAILED: 5: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: 5: CHECK( i == nval ) 5: with expansion: 5: 0 == 4 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: 5: CHECK( i == nval ) 5: with expansion: 5: 0 == 1 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTest9eIEpK/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__ff9cd500-86d5-4756-aa24-d416fae8e4ce281473866425472_1772062700131/ATTR_INT32.tdb. 5: ------------------------------------------------------------------------------- 5: Test sparse array iterator with filter with empty value 5: ------------------------------------------------------------------------------- 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:238 5: ............................................................................... 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: 5: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTest9eIEpK/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__ff9cd500-86d5-4756-aa24-d416fae8e4ce281473866425472_1772062700131/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:108: FAILED: 5: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTest9eIEpK/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__fe0dbd24-0851-412c-8c38-b51f7adcd037281473866425472_1772062700131/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:126: FAILED: 5: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 5: [TileDB::Codec] Error: Could not compress with GZIP. 5: [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTest9eIEpK/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__fe0dbd24-0851-412c-8c38-b51f7adcd037281473866425472_1772062700131/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:127: FAILED: 5: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) 5: with expansion: 5: -1 == 0 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: 5: CHECK( i == nval ) 5: with expansion: 5: 0 == 4 5: 5: =============================================================================== 5: test cases: 6 | 0 passed | 6 failed 5: assertions: 81 | 58 passed | 23 failed 5: 6: Randomness seeded to: 2358602289 6: 6: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 6: test_array_schema_api is a Catch2 v3.7.1 host application. 6: Run with -? for options 6: 6: ------------------------------------------------------------------------------- 6: Test array schema backward compatibility 2 6: ------------------------------------------------------------------------------- 6: ./genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc:349 6: ............................................................................... 6: 6: ./genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc:368: FAILED: 6: CHECK( array_schema.compression_level_[1] == -1 ) 6: with expansion: 6: 255 == -1 6: 6: =============================================================================== 6: test cases: 13 | 12 passed | 1 failed 6: assertions: 335 | 334 passed | 1 failed 6: 1/22 Test #1: test_array_schema ................ Passed 0.06 sec 2/22 Test #2: test_print_array_schema .......... Passed 0.05 sec 3/22 Test #3: test_print_book_keeping .......... Passed 0.05 sec 4/22 Test #4: test_sparse_array_benchmark ...... Passed 0.05 sec 5/22 Test #5: test_array_iterator ..............***Failed 0.05 sec Randomness seeded to: 1024879218 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestZnmjXQ/array_iterator_test_ws/test_sparse_array_it_full/.__e2cefd58-9ec9-4266-a8e3-c4e2dc3299e1281473866425472_1772062700125/ATTR_INT32.tdb. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ test_array_iterator is a Catch2 v3.7.1 host application. Run with -? for options ------------------------------------------------------------------------------- Test sparse array iterator ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:194 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) with expansion: -1 == 0 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestZnmjXQ/array_iterator_test_ws/test_sparse_array_it_full/.__e2cefd58-9ec9-4266-a8e3-c4e2dc3299e1281473866425472_1772062700125/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:108: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: CHECK( i == nval ) with expansion: 0 == 8 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestG90rl5/array_iterator_test_ws/test_sparse_array_it_reset/.__febc7636-3841-4c14-94a2-a63ae506900b281473866425472_1772062700126/ATTR_INT32.tdb. ------------------------------------------------------------------------------- Test sparse array iterator with reset ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:201 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) with expansion: -1 == 0 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestG90rl5/array_iterator_test_ws/test_sparse_array_it_reset/.__febc7636-3841-4c14-94a2-a63ae506900b281473866425472_1772062700126/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:108: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: CHECK( i == nval ) with expansion: 0 == 8 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: CHECK( i == nval ) with expansion: 0 == 8 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTeste4Cjt3/array_iterator_test_ws/test_sparse_array_it_reset_subarray/.__0c26dca4-3876-47d7-a890-f0537f02dbc9281473866425472_1772062700127/ATTR_INT32.tdb. ------------------------------------------------------------------------------- Test sparse array iterator with reset subarray ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:211 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) with expansion: -1 == 0 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTeste4Cjt3/array_iterator_test_ws/test_sparse_array_it_reset_subarray/.__0c26dca4-3876-47d7-a890-f0537f02dbc9281473866425472_1772062700127/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:108: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: CHECK( i == nval ) with expansion: 0 == 8 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: CHECK( i == nval ) with expansion: 0 == 5 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestXTSU7e/array_iterator_test_ws/test_sparse_array_it_filter/.__ef3e0cf0-3b3a-48ec-a927-4c0c86b74afe281473866425472_1772062700128/ATTR_INT32.tdb. ------------------------------------------------------------------------------- Test sparse array iterator with filter ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:221 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) with expansion: -1 == 0 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestXTSU7e/array_iterator_test_ws/test_sparse_array_it_filter/.__ef3e0cf0-3b3a-48ec-a927-4c0c86b74afe281473866425472_1772062700128/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:108: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: CHECK( i == nval ) with expansion: 0 == 4 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestLVFMbn/array_iterator_test_ws/test_sparse_array_it_filter_reset/.__95fce13f-ca24-4ca3-8233-e58ef4de4086281473866425472_1772062700130/ATTR_INT32.tdb. ------------------------------------------------------------------------------- Test sparse array iterator with filter with subarray ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:228 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) with expansion: -1 == 0 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTestLVFMbn/array_iterator_test_ws/test_sparse_array_it_filter_reset/.__95fce13f-ca24-4ca3-8233-e58ef4de4086281473866425472_1772062700130/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:108: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: CHECK( i == nval ) with expansion: 0 == 4 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: CHECK( i == nval ) with expansion: 0 == 1 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTest9eIEpK/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__ff9cd500-86d5-4756-aa24-d416fae8e4ce281473866425472_1772062700131/ATTR_INT32.tdb. ------------------------------------------------------------------------------- Test sparse array iterator with filter with empty value ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:238 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) with expansion: -1 == 0 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTest9eIEpK/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__ff9cd500-86d5-4756-aa24-d416fae8e4ce281473866425472_1772062700131/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:108: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTest9eIEpK/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__fe0dbd24-0851-412c-8c38-b51f7adcd037281473866425472_1772062700131/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:126: FAILED: CHECK( tiledb_array_write(tiledb_array, buffers, buffer_sizes) == 0 ) with expansion: -1 == 0 [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/TileDBTest9eIEpK/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__fe0dbd24-0851-412c-8c38-b51f7adcd037281473866425472_1772062700131/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:127: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:185: FAILED: CHECK( i == nval ) with expansion: 0 == 4 =============================================================================== test cases: 6 | 0 passed | 6 failed assertions: 81 | 58 passed | 23 failed 6/22 Test #6: test_array_schema_api ............***Failed 0.04 sec Randomness seeded to: 2358602289 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ test_array_schema_api is a Catch2 v3.7.1 host application. Run with -? for options ------------------------------------------------------------------------------- Test array schema backward compatibility 2 ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc:349 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc:368: FAILED: CHECK( array_schema.compression_level_[1] == -1 ) with expansion: 255 == -1 =============================================================================== test cases: 13 | 12 passed | 1 failed assertions: 335 | 334 passed | 1 failed 11: Randomness seeded to: 61751861 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: 7/22 Test #11: test_codec_filter ................ Passed 0.01 sec 9: Randomness seeded to: 3423087287 9: [TileDB::utils] Error: (set_working_dir) Failed to set_working_dir as /tmp/TileDBTestOYRmng/WORKSPACE.nonexistent does not exist 9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestW64fhT/WORKSPACE errno=2(No such file or directory) 9: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=/tmp/TileDBTestW64fhT/WORKSPACE errno=2(No such file or directory) 9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestvCog0f/WORKSPACE errno=2(No such file or directory) test 13 Start 13: test_filter_api 13: Test command: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_filter_api 13: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_mem_utils 14: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_uri 15: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_utils 16: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_posixfs 17: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_storage_buffer 18: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 18: Test timeout computed to be: 10000000 9: 7e820c3ee657b1a27a56a7be9d202a7a7e820c3ee657b1a27a56a7be9d202a7a[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestGxB7TG/test_file 9: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestGxB7TG/test_file test 19 Start 19: ci_tests 19: Test command: /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples/run_examples.sh "&&" "echo" "Running diff with expected_results" "&&" "diff" "log" "/build/reproducible-path/genomicsdb-1.5.4/examples/expected_results" 19: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples 19: Test timeout computed to be: 10000000 10: Randomness seeded to: 2880066811 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: 8/22 Test #10: test_codec ....................... Passed 0.03 sec 12: Randomness seeded to: 1874885187 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: 3188552655 14: Wed Feb 25 11:38:20 2026 Memory stats Tracking memory usage START size=6MB resident=1MB share=1MB text=612KB lib=0 data=536KB dt=0 15: Randomness seeded to: 1772283311 15: =============================================================================== 15: All tests passed (113 assertions in 1 test case) 15: 9/22 Test #15: test_uri ......................... Passed 0.02 sec test 20 Start 20: ctests 20: Test command: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests "-d" "yes" 20: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp 20: Test timeout computed to be: 10000000 test 21 Start 21: api_tests 21: Test command: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/api_tests "-d" "yes" 21: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp 21: Test timeout computed to be: 10000000 16: Randomness seeded to: 1860497618 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) 16: =============================================================================== 16: All tests passed (86 assertions in 6 test cases) 16: 17: Randomness seeded to: 3131262503 17: [TileDB::FileSystem] Error: (create_dir) Cannot create directory; Directory already exists path=/tmp/TileDBTestDl6IpX/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/TileDBTestDl6IpX/test_posixfs_dirdir errno=21(Is a directory) 17: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTestDl6IpX/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) 17: [TileDB::FileSystem] Error: (delete_dir) Could not recursively delete directory path=non-existent-dir errno=2(No such file or directory) 17: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=non-existent-dir errno=2(No such file or directory) 17: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/tmp/TileDBTestfsaYNe/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/TileDBTestDS6RZ1/test_posixfs_dirread_write/foo 17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestDS6RZ1/test_posixfs_dirread_write/foo 17: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestDS6RZ1/test_posixfs_dirread_write/foo 17: [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) 17: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) 18: Randomness seeded to: 2289983095 18: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTestENKPS9/test-file 18: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/tmp/TileDBTestENKPS9/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/TileDBTestENKPS9/test-file 18: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestENKPS9/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/TileDBTesth6EYME/compressed_foo 19: Example 1: Running ./tiledb_workspace_group_create... 10/22 Test #16: test_utils ....................... Passed 0.03 sec test 22 Start 22: tools_tests 22: Test command: /build/reproducible-path/genomicsdb-1.5.4/tests/test_tools.sh "/build/reproducible-path/genomicsdb-1.5.4/tests/inputs/vcfs" "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools" "1" 22: Working Directory: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools 22: Test timeout computed to be: 10000000 12: [TileDB::Expression] Error: (init) Parser SetExpr error for expression 'resolve(a1) &= ""': Too few parameters passed to function "resolve". 17: [TileDB::FileSystem] Error: (read_from_file) Cannot open simultaneously for reads/writes path=test_posixfs_dir_locking/foo 17: [TileDB::FileSystem] Error: (~PosixFS) File does not seem to be closed path=test_dir_locking1/foo_sync 17: [TileDB::FileSystem] Error: (~PosixFS) File does not seem to be closed path=test_dir_locking1/foo_no_close 17: =============================================================================== 17: All tests passed (258 assertions in 11 test cases) 17: 13: Randomness seeded to: 3747553260 13: =============================================================================== 13: All tests passed (288 assertions in 3 test cases) 13: 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: 11/22 Test #13: test_filter_api .................. Passed 0.05 sec 12/22 Test #12: test_expressions ................. Passed 0.06 sec 19: Example 1: Done running ./tiledb_workspace_group_create 13/22 Test #17: test_posixfs ..................... Passed 0.05 sec 19: Example 2: Running ./tiledb_ls_workspaces... 21: Randomness seeded to: 1952005377 21: 0.002 s: utils 21: 0.000 s: api empty_args 21: 0.019 s: api query_variants direct DP 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 21: 0.008 s: api query_variants direct DP with huge row range 19: Example 3: Running ./tiledb_array_create_dense... 21: 0.009 s: api query_variants direct DP with huge disjoint row ranges 21: 0.010 s: api query_variants direct DP with range composed of multiple points 20: 11:38:20.276 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 11:38:20.276 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 11:38:20.277 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 20: Randomness seeded to: 1179467626 20: 0.003 s: Check loader configuration with json file 20: 11:38:20.278 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 11:38:20.278 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 11:38:20.278 DEBUG NativeGenomicsDB - pid=511874 tid=511874 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: 11:38:20.279 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 11:38:20.279 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 11:38:20.279 DEBUG NativeGenomicsDB - pid=511874 tid=511874 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: 11:38:20.279 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 11:38:20.279 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 11:38:20.280 DEBUG NativeGenomicsDB - pid=511874 tid=511874 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: 11:38:20.282 INFO NativeGenomicsDB - pid=511874 tid=511874 Contig/chromosome 2 begins at TileDB column 249250601 and intersects with contig/chromosome 1 that spans columns [0, 249250620] 19: Example 3: Done running ./tiledb_array_create_dense 20: 0.001 s: pb_overlapping_vid_mapping_test 20: 11:38:20.282 INFO NativeGenomicsDB - pid=511874 tid=511874 This is a test 20: 11:38:20.282 WARN NativeGenomicsDB - pid=511874 tid=511874 This is a test 20: 11:38:20.282 ERROR NativeGenomicsDB - pid=511874 tid=511874 This is a test 20: 11:38:20.282 DEBUG NativeGenomicsDB - pid=511874 tid=511874 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: 11:38:20.282 INFO NativeGenomicsDB - pid=511874 tid=511874 i=1 str=This is a test 20: 11:38:20.282 WARN NativeGenomicsDB - pid=511874 tid=511874 i=2 str=This is a test 20: 11:38:20.282 ERROR NativeGenomicsDB - pid=511874 tid=511874 i=3 str=This is a test 20: 11:38:20.282 DEBUG NativeGenomicsDB - pid=511874 tid=511874 i=4 str=This is a test 20: 11:38:20.282 INFO NativeGenomicsDB - pid=511874 tid=511874 i=6 str=This is a once_only test 20: 11:38:20.282 WARN NativeGenomicsDB - pid=511874 tid=511874 i=7 str=This is a once_only test 20: 0.000 s: test logger format 20: 11:38:20.282 ERROR NativeGenomicsDB - pid=511874 tid=511874 i=1 str=This is a test 20: 11:38:20.282 ERROR NativeGenomicsDB - pid=511874 tid=511874 Test Exception 20: 11:38:20.282 ERROR NativeGenomicsDB - pid=511874 tid=511874 Test Exception 20: 11:38:20.282 ERROR NativeGenomicsDB - pid=511874 tid=511874 Test Exception 20: 11:38:20.283 ERROR NativeGenomicsDB - pid=511874 tid=511874 Native Stack Trace: 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x76fe8) [0xaaaaaf2b6fe8] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x65e20) [0xaaaaaf2a5e20] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x2263ac) [0xaaaaaf4663ac] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x226d60) [0xaaaaaf466d60] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x227194) [0xaaaaaf467194] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fbef8) [0xaaaaaf43bef8] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fc444) [0xaaaaaf43c444] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3ca90) [0xaaaaaf27ca90] 20: /lib/aarch64-linux-gnu/libc.so.6(+0x2229c) [0xffff82dd229c] 20: 11:38:20.283 ERROR NativeGenomicsDB - pid=511874 tid=511874 Test Exception 20: 11:38:20.283 ERROR NativeGenomicsDB - pid=511874 tid=511874 Native Stack Trace: 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x76fe8) [0xaaaaaf2b6fe8] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x65e4c) [0xaaaaaf2a5e4c] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x2263ac) [0xaaaaaf4663ac] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x226d60) [0xaaaaaf466d60] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x227194) [0xaaaaaf467194] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fbef8) [0xaaaaaf43bef8] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fc444) [0xaaaaaf43c444] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3ca90) [0xaaaaaf27ca90] 20: /lib/aarch64-linux-gnu/libc.so.6(+0x2229c) [0xffff82dd229c] 20: 0.001 s: test logger exceptions 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x76fe8) [0xaaaaaf2b6fe8] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x686f0) [0xaaaaaf2a86f0] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x2263ac) [0xaaaaaf4663ac] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x226d60) [0xaaaaaf466d60] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x227194) [0xaaaaaf467194] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fbef8) [0xaaaaaf43bef8] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fc444) [0xaaaaaf43c444] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3ca90) [0xaaaaaf27ca90] 20: /lib/aarch64-linux-gnu/libc.so.6(+0x2229c) [0xffff82dd229c] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x76fe8) [0xaaaaaf2b6fe8] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x686cc) [0xaaaaaf2a86cc] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x2263ac) [0xaaaaaf4663ac] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x226d60) [0xaaaaaf466d60] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x227194) [0xaaaaaf467194] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fbef8) [0xaaaaaf43bef8] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fc444) [0xaaaaaf43c444] 20: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3ca90) [0xaaaaaf27ca90] 20: /lib/aarch64-linux-gnu/libc.so.6(+0x2229c) [0xffff82dd229c] 20: This is a test 20: 0.000 s: test explicit logger 20: 11:38:20.283 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 11:38:20.283 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 11:38:20.284 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 19: Example 4: Running ./tiledb_array_create_sparse... 21: 0.016 s: api query_variants direct DP with range composed of overlapping ranges 20: 0.008 s: gvcf iterator 20: 11:38:20.291 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 11:38:20.291 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 11:38:20.291 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.292 ERROR NativeGenomicsDB - pid=511876 tid=511876 Query interval 0:-100-1 is out of bounds 21: 0.004 s: api query_variants direct DP with invalid row range 20: 0.010 s: columnar_gvcf_iterator_test 20: 11:38:20.301 ERROR NativeGenomicsDB - pid=511874 tid=511874 hts_plugin could not find /tmp/GenomicsDBbz1fBy 20: [TileDB] Error: No TileDB support for URL=dfdfd://ddd. 20: 11:38:20.301 ERROR NativeGenomicsDB - pid=511874 tid=511874 htslib_plugin could not open dfdfd://ddd 20: No TileDB support for URL=dfdfd://ddd 20: 11:38:20.301 ERROR NativeGenomicsDB - pid=511874 tid=511874 hts_plugin could not find /tmp/GenomicsDBbz1fBy/foo 20: 11:38:20.301 ERROR NativeGenomicsDB - pid=511874 tid=511874 hts_plugin could not find /tmp/GenomicsDBbz1fBy/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: 11:38:20.301 ERROR NativeGenomicsDB - pid=511874 tid=511874 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: 11:38:20.301 ERROR NativeGenomicsDB - pid=511874 tid=511874 hts_plugin read non-existent-file error [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-file errno=2(No such file or directory) 20: 0.000 s: test htslib plugin 20: 0.000 s: alleles_combiner 20: 0.000 s: gt_remapper 19: Example 4: Done running ./tiledb_array_create_sparse 19: Example 5: Running ./tiledb_array_primitive... 21: 0.021 s: api query_variants direct DP and GT 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 21: 0.013 s: api query_variants direct DP and GT with PP 19: Example 6: Running ./tiledb_array_write_dense_1... 21: 11:38:20.329 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.330 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.330 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.335 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.335 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.336 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 19: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 19: [TileDB::Codec] Error: Could not compress with GZIP. 19: [TileDB::WriteState] Error: Cannot compress tile for /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/my_workspace/dense_arrays/my_array_A/.__cd8dd1ae-e1c4-4aac-9cad-ded3ea8af274281473534943264_1772062700340/a1.tdb. 19: [TileDB::WriteState] Error: Cannot compress tile for /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/my_workspace/dense_arrays/my_array_A/.__cd8dd1ae-e1c4-4aac-9cad-ded3ea8af274281473534943264_1772062700340/a1.tdb[Examples::./genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc] Runtime Error. 19: 19: Exit Status=255. Quitting execution of run_examples.sh 21: 11:38:20.341 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.341 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.342 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 14/22 Test #19: ci_tests .........................***Failed 0.16 sec Example 1: Running ./tiledb_workspace_group_create... Example 1: Done running ./tiledb_workspace_group_create Example 2: Running ./tiledb_ls_workspaces... [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=&& errno=2(No such file or directory) Example 2: Done running ./tiledb_ls_workspaces Example 3: Running ./tiledb_array_create_dense... Example 3: Done running ./tiledb_array_create_dense Example 4: Running ./tiledb_array_create_sparse... Example 4: Done running ./tiledb_array_create_sparse Example 5: Running ./tiledb_array_primitive... Array name: my_workspace/dense_arrays/my_array_A Attributes: a1 a2 a3 The array is dense Array name: my_workspace/sparse_arrays/my_array_B Attributes: a1 a2 a3 The array is sparse Example 5: Done running ./tiledb_array_primitive Example 6: Running ./tiledb_array_write_dense_1... [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/my_workspace/dense_arrays/my_array_A/.__cd8dd1ae-e1c4-4aac-9cad-ded3ea8af274281473534943264_1772062700340/a1.tdb. [TileDB::WriteState] Error: Cannot compress tile for /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/my_workspace/dense_arrays/my_array_A/.__cd8dd1ae-e1c4-4aac-9cad-ded3ea8af274281473534943264_1772062700340/a1.tdb[Examples::./genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc] Runtime Error. Exit Status=255. Quitting execution of run_examples.sh 21: 0.015 s: api query_variants with json 21: 11:38:20.342 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.342 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.342 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/ws/t0_1_2/.__consolidation_lock 21: 11:38:20.349 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.349 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.349 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.355 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.355 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.355 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.013 s: api query variants with json string 21: 11:38:20.355 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.355 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.356 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.005 s: api query variants with enabled shared posixfs optimizations 21: ---------------- 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: 0.018 s: api query_variant_calls direct 20: 20: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 20: ctests is a Catch2 v3.7.1 host application. 20: Run with -? for options 20: 20: ------------------------------------------------------------------------------- 20: test bgen 20: ------------------------------------------------------------------------------- 20: ./src/test/cpp/src/test_bgen.cc:11 20: ............................................................................... 20: 20: ./src/test/cpp/src/test_bgen.cc:11: FAILED: 20: due to unexpected exception with message: 20: Direct - first BGEN test output did not match reference output 20: 20: 0.000 s: test bgen 20: 11:38:20.382 ERROR NativeGenomicsDB - pid=511874 tid=511874 VariantStorageManagerException exception : Could not open workspace 20: 11:38:20.382 ERROR NativeGenomicsDB - pid=511874 tid=511874 Could not open array non_existent_array in workspace /tmp/GenomicsDB7cfh2i/ws 20: 11:38:20.382 ERROR NativeGenomicsDB - pid=511874 tid=511874 VariantQueryProcessorException : Could not open array non_existent_array at workspace /tmp/GenomicsDB7cfh2i/ws 20: 0.000 s: constructor 20: 11:38:20.382 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 20: 11:38:20.382 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 20: 11:38:20.382 DEBUG NativeGenomicsDB - pid=511874 tid=511874 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:[] 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 20: 11:38:20.386 ERROR NativeGenomicsDB - pid=511874 tid=511874 Invalid query attribute : non_existent_attribute 20: 0.005 s: test basic queries 20: 11:38:20.386 INFO NativeGenomicsDB - pid=511874 tid=511874 Mem usage Check basic memory usage rss=46M 20: 0.000 s: check basic memory usage 20: =============================================================================== 20: test cases: 34 | 33 passed | 1 failed 20: assertions: 1440 | 1439 passed | 1 failed 20: 20: 11:38:20.386 DEBUG NativeGenomicsDB - pid=511874 tid=511874 Deleting htslib_fs_adapter tiledb_ctx_map 15/22 Test #20: ctests ...........................***Failed 0.21 sec 11:38:20.276 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.276 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.277 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name Randomness seeded to: 1179467626 0.003 s: Check loader configuration with json file 11:38:20.278 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.278 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.278 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 0.001 s: Check configuration with json file 11:38:20.279 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.279 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.279 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 0.001 s: Check configuration with json file and shared posifs optim 11:38:20.279 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.279 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.280 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 0.001 s: Compare configuration with json file and string 0.000 s: genotype_ordering haploid_5_alleles 0.000 s: genotype_ordering diploid_2_alleles 0.000 s: genotype_ordering diploid_3_alleles 0.000 s: genotype_ordering diploid_4_alleles 0.000 s: genotype_ordering triploid_2_alleles 0.000 s: genotype_ordering triploid_3_alleles 0.000 s: genotype_ordering triploid_4_alleles 0.000 s: genotype_ordering triploid_4_alleles_reordered_alleles 0.000 s: genotype_ordering triploid_4_alleles_reordered_alleles_without_NON_REF 0.000 s: multid_vector 2D_test 0.000 s: multid_vector 3D_test 0.000 s: multid_vector 2D_test_with_missing_values 0.000 s: multid_vector 2D_float_test 0.000 s: multid_vector 2D_tuple_test 0.000 s: pb_query_config_test 0.001 s: pb_vid_mapping_test 11:38:20.282 INFO NativeGenomicsDB - pid=511874 tid=511874 Contig/chromosome 2 begins at TileDB column 249250601 and intersects with contig/chromosome 1 that spans columns [0, 249250620] 0.001 s: pb_overlapping_vid_mapping_test 11:38:20.282 INFO NativeGenomicsDB - pid=511874 tid=511874 This is a test 11:38:20.282 WARN NativeGenomicsDB - pid=511874 tid=511874 This is a test 11:38:20.282 ERROR NativeGenomicsDB - pid=511874 tid=511874 This is a test 11:38:20.282 DEBUG NativeGenomicsDB - pid=511874 tid=511874 This is a test This is a test This is a test This is a test This is a test This is a once_only test Trying format Hello1 Hello2 0.000 s: test logger 11:38:20.282 INFO NativeGenomicsDB - pid=511874 tid=511874 i=1 str=This is a test 11:38:20.282 WARN NativeGenomicsDB - pid=511874 tid=511874 i=2 str=This is a test 11:38:20.282 ERROR NativeGenomicsDB - pid=511874 tid=511874 i=3 str=This is a test 11:38:20.282 DEBUG NativeGenomicsDB - pid=511874 tid=511874 i=4 str=This is a test 11:38:20.282 INFO NativeGenomicsDB - pid=511874 tid=511874 i=6 str=This is a once_only test 11:38:20.282 WARN NativeGenomicsDB - pid=511874 tid=511874 i=7 str=This is a once_only test 0.000 s: test logger format 11:38:20.282 ERROR NativeGenomicsDB - pid=511874 tid=511874 i=1 str=This is a test 11:38:20.282 ERROR NativeGenomicsDB - pid=511874 tid=511874 Test Exception 11:38:20.282 ERROR NativeGenomicsDB - pid=511874 tid=511874 Test Exception 11:38:20.282 ERROR NativeGenomicsDB - pid=511874 tid=511874 Test Exception 11:38:20.283 ERROR NativeGenomicsDB - pid=511874 tid=511874 Native Stack Trace: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x76fe8) [0xaaaaaf2b6fe8] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x65e20) [0xaaaaaf2a5e20] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x2263ac) [0xaaaaaf4663ac] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x226d60) [0xaaaaaf466d60] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x227194) [0xaaaaaf467194] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fbef8) [0xaaaaaf43bef8] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fc444) [0xaaaaaf43c444] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3ca90) [0xaaaaaf27ca90] /lib/aarch64-linux-gnu/libc.so.6(+0x2229c) [0xffff82dd229c] 11:38:20.283 ERROR NativeGenomicsDB - pid=511874 tid=511874 Test Exception 11:38:20.283 ERROR NativeGenomicsDB - pid=511874 tid=511874 Native Stack Trace: /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x76fe8) [0xaaaaaf2b6fe8] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x65e4c) [0xaaaaaf2a5e4c] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x2263ac) [0xaaaaaf4663ac] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x226d60) [0xaaaaaf466d60] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x227194) [0xaaaaaf467194] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fbef8) [0xaaaaaf43bef8] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fc444) [0xaaaaaf43c444] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3ca90) [0xaaaaaf27ca90] /lib/aarch64-linux-gnu/libc.so.6(+0x2229c) [0xffff82dd229c] 0.001 s: test logger exceptions /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x76fe8) [0xaaaaaf2b6fe8] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x686f0) [0xaaaaaf2a86f0] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x2263ac) [0xaaaaaf4663ac] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x226d60) [0xaaaaaf466d60] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x227194) [0xaaaaaf467194] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fbef8) [0xaaaaaf43bef8] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fc444) [0xaaaaaf43c444] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3ca90) [0xaaaaaf27ca90] /lib/aarch64-linux-gnu/libc.so.6(+0x2229c) [0xffff82dd229c] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x76fe8) [0xaaaaaf2b6fe8] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x686cc) [0xaaaaaf2a86cc] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x2263ac) [0xaaaaaf4663ac] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x226d60) [0xaaaaaf466d60] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x227194) [0xaaaaaf467194] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fbef8) [0xaaaaaf43bef8] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x1fc444) [0xaaaaaf43c444] /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3ca90) [0xaaaaaf27ca90] /lib/aarch64-linux-gnu/libc.so.6(+0x2229c) [0xffff82dd229c] This is a test 0.000 s: test explicit logger 11:38:20.283 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.283 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.284 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 0.008 s: gvcf iterator 11:38:20.291 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.291 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.291 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 0.010 s: columnar_gvcf_iterator_test 11:38:20.301 ERROR NativeGenomicsDB - pid=511874 tid=511874 hts_plugin could not find /tmp/GenomicsDBbz1fBy [TileDB] Error: No TileDB support for URL=dfdfd://ddd. 11:38:20.301 ERROR NativeGenomicsDB - pid=511874 tid=511874 htslib_plugin could not open dfdfd://ddd No TileDB support for URL=dfdfd://ddd 11:38:20.301 ERROR NativeGenomicsDB - pid=511874 tid=511874 hts_plugin could not find /tmp/GenomicsDBbz1fBy/foo 11:38:20.301 ERROR NativeGenomicsDB - pid=511874 tid=511874 hts_plugin could not find /tmp/GenomicsDBbz1fBy/foo [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) 11:38:20.301 ERROR NativeGenomicsDB - pid=511874 tid=511874 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) [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-file errno=2(No such file or directory) 11:38:20.301 ERROR NativeGenomicsDB - pid=511874 tid=511874 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) 0.000 s: test htslib plugin 0.000 s: alleles_combiner 0.000 s: gt_remapper ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ctests is a Catch2 v3.7.1 host application. Run with -? for options ------------------------------------------------------------------------------- test bgen ------------------------------------------------------------------------------- ./src/test/cpp/src/test_bgen.cc:11 ............................................................................... ./src/test/cpp/src/test_bgen.cc:11: FAILED: due to unexpected exception with message: Direct - first BGEN test output did not match reference output 0.000 s: test bgen 11:38:20.382 ERROR NativeGenomicsDB - pid=511874 tid=511874 VariantStorageManagerException exception : Could not open workspace 11:38:20.382 ERROR NativeGenomicsDB - pid=511874 tid=511874 Could not open array non_existent_array in workspace /tmp/GenomicsDB7cfh2i/ws 11:38:20.382 ERROR NativeGenomicsDB - pid=511874 tid=511874 VariantQueryProcessorException : Could not open array non_existent_array at workspace /tmp/GenomicsDB7cfh2i/ws 0.000 s: constructor 11:38:20.382 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.382 WARN NativeGenomicsDB - pid=511874 tid=511874 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.382 DEBUG NativeGenomicsDB - pid=511874 tid=511874 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.386 ERROR NativeGenomicsDB - pid=511874 tid=511874 Invalid query attribute : non_existent_attribute 0.005 s: test basic queries 11:38:20.386 INFO NativeGenomicsDB - pid=511874 tid=511874 Mem usage Check basic memory usage rss=46M 0.000 s: check basic memory usage =============================================================================== test cases: 34 | 33 passed | 1 failed assertions: 1440 | 1439 passed | 1 failed 11:38:20.386 DEBUG NativeGenomicsDB - pid=511874 tid=511874 Deleting htslib_fs_adapter tiledb_ctx_map 21: 0.015 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: 0.015 s: api query_variant_calls direct DP and GT with PP 21: 11:38:20.410 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.410 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.410 DEBUG NativeGenomicsDB - pid=511876 tid=511876 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: 11:38:20.415 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.415 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.415 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.419 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.419 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.419 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.010 s: api query_variant_calls with json 21: 11:38:20.420 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.420 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.420 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.420 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.420 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.421 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.421 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.426 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.426 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.426 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.426 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.426 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.427 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.427 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.432 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.432 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.432 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.432 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.432 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.433 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.433 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.005 s: Try query with contig intervals instead of tiledb column intervals 21: 0.017 s: api query_variant_calls with protobuf 21: 11:38:20.436 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.436 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.437 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.437 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.437 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.437 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.437 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.442 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.442 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.443 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.443 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.443 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.443 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.443 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.449 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.449 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.449 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.449 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.449 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.450 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.450 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.005 s: Try query with a filter 21: 0.017 s: api query_variant_calls with protobuf 21: 11:38:20.453 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.453 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.454 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.454 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.454 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.454 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.454 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.459 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.460 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.460 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.460 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.460 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.460 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.460 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.466 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.466 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.466 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.466 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.466 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.467 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.467 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.004 s: Try query with a filter and workspace with GT ploidy 21: 0.016 s: api query_variant_calls with protobuf 21: 11:38:20.470 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.470 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.470 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.471 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.471 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.471 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.471 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.476 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.476 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.476 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.477 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.477 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.477 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.477 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.482 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.482 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.483 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.483 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.483 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.483 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.483 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.004 s: Try query with a filter and a small segment size to force TileDB buffers overflow 21: 0.017 s: api query_variant_calls with protobuf 21: 11:38:20.487 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.487 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.487 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.487 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.487 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.488 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.488 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.493 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.493 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.493 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.494 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.494 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.494 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.494 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.499 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.499 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.499 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.500 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.500 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.500 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.500 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.004 s: Try query with POS and ROW with no match 21: 0.017 s: api query_variant_calls with protobuf 21: 11:38:20.504 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.504 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.504 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.504 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.504 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.504 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.504 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.510 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.510 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.510 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.511 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.511 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.511 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.511 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.516 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.516 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.516 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.516 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.516 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.517 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.517 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.004 s: Try query with POS and ROW 21: 0.017 s: api query_variant_calls with protobuf 21: 11:38:20.520 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.520 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.521 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.521 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.521 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.521 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.521 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.526 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.526 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.526 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.527 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.527 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.527 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.527 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.532 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.532 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.532 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.533 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.533 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.533 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.533 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.004 s: Try query with ISHOMREF 21: 0.016 s: api query_variant_calls with protobuf 21: 11:38:20.536 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.536 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.537 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.537 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.537 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.537 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.537 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.542 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.542 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.543 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.543 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.543 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.543 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.543 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.548 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.548 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.549 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.549 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.549 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.549 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.549 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.005 s: Try query with ISHOMREF 21: 0.016 s: api query_variant_calls with protobuf 21: 11:38:20.553 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.553 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.553 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.554 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.554 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.554 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.554 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.559 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.559 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.559 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.560 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.560 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.560 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.560 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.565 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.565 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.566 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.566 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.566 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.566 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.566 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.004 s: Try query with ISHOMREF 21: 0.017 s: api query_variant_calls with protobuf 21: 11:38:20.570 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.570 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.570 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.570 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.570 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.571 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.571 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.576 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.576 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.576 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.576 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.576 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.576 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.577 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 11:38:20.582 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.582 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.582 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.583 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.583 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.583 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.583 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 0.004 s: Try query with ISHOMREF 21: 0.017 s: api query_variant_calls with protobuf 21: 0.004 s: Base configuration 21: 0.005 s: api query_variant_calls with protobuf and config 21: 11:38:20.592 ERROR NativeGenomicsDB - pid=511876 tid=511876 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: 0.002 s: Subset Array using QueryConfiguration 21: 0.003 s: api query_variant_calls with protobuf and config 21: 0.003 s: Subset Array using ExportConfiguration 21: 0.004 s: api query_variant_calls with protobuf and config 21: 0.002 s: Subset Array using QueryConfiguration - two intervals 21: 0.003 s: api query_variant_calls with protobuf and config 21: 0.004 s: Subset Array using QueryConfiguration - multiple queries 21: 0.005 s: api query_variant_calls with protobuf and config 21: 0.004 s: Test filter test for 0 21: 0.004 s: api query_variant_calls with protobuf new 21: 0.004 s: Test filter test for 1 21: 0.004 s: api query_variant_calls with protobuf new 21: 0.004 s: Test filter test for 2 21: 0.004 s: api query_variant_calls with protobuf new 21: 0.004 s: Test filter test for 3 21: 0.004 s: api query_variant_calls with protobuf new 21: 273 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"DP":[null,null],"GT":["C/C","G/A"],"REF":["C","G"]},"HG01530":{"CHR":["1"],"POS":[17385],"DP":[76],"GT":["G/A"],"REF":["G"]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"DP":[null,120],"GT":["C/C","T/T"],"REF":["C","G"]}} 21: 21: 207 {"FIELD":["CHR","POS","DP","GT","REF"],"HG00141":[["1",12141,null,"C/C","C"],["1",17385,null,"G/A","G"]],"HG01530":[["1",17385,76,"G/A","G"]],"HG01958":[["1",12145,null,"C/C","C"],["1",17385,120,"T/T","G"]]} 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: 21: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 21: api_tests is a Catch2 v3.7.1 host application. 21: Run with -? for options 21: 21: ------------------------------------------------------------------------------- 21: api query_variant_calls with JSONVariantCallProcessor 21: ------------------------------------------------------------------------------- 21: ./src/test/cpp/src/test_genomicsdb_api.cc:887 21: ............................................................................... 21: 21: ./src/test/cpp/src/test_genomicsdb_api.cc:997: FAILED: 21: CHECK( output.length() == 1805 ) 21: with expansion: 21: 1807 (0x70f) == 1805 (0x70d) 21: 21: 1807 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"AD":[null,58],"BaseQRankSum":[null,-2.0959999561309816],"ClippingRankSum":[null,-1.8589999675750733],"DP":[null,null],"DP_FORMAT":[2,80],"DS":["1","1"],"FILTER":[null,0],"GQ":[0,99],"GT":["C/C","G/A"],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MIN_DP":[0,null],"MLEAC":[null,1],"MLEAF":[null,0.5],"MQ":[null,31.719999313354493],"MQ0":[null,8],"MQRankSum":[null,-0.32899999618530276],"PGT":[null,"0|1"],"PID":[null,"17385_G_A"],"PL":[0,504],"QUAL":[null,475.7699890136719],"RAW_MQ":[null,5.5],"REF":["C","G"],"ReadPosRankSum":[null,0.004999999888241291],"SB":[null,"[58, 0, 22, 0]"]},"HG01530":{"CHR":["1"],"POS":[17385],"AD":[40],"BaseQRankSum":[1.0460000038146973],"ClippingRankSum":[-2.242000102996826],"DP":[76],"DP_FORMAT":[76],"DS":["127"],"FILTER":[null],"GQ":[99],"GT":["G/A"],"HaplotypeScore":[null],"InbreedingCoeff":[null],"MIN_DP":[null],"MLEAC":[1],"MLEAF":[0.5],"MQ":[59.369998931884769],"MQ0":[0],"MQRankSum":[-0.4320000112056732],"PGT":[null],"PID":[null],"PL":[1018],"QUAL":[989.77001953125],"RAW_MQ":[null],"REF":["G"],"ReadPosRankSum":[2.055000066757202],"SB":["[9, 31, 13, 23]"]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"AD":[null,0],"BaseQRankSum":[null,-2.0739998817443849],"ClippingRankSum":[null,0.5550000071525574],"DP":[null,120],"DP_FORMAT":[3,120],"DS":["1","127"],"FILTER":[null,0],"GQ":[0,99],"GT":["C/C","T/T"],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MIN_DP":[0,null],"MLEAC":[null,2],"MLEAF":[null,1.0],"MQ":[null,29.81999969482422],"MQ0":[null,3],"MQRankSum":[null,-1.36899995803833],"PGT":[null,"0|1"],"PID":[null,"17385_G_T"],"PL":[0,3336],"QUAL":[null,3302.77001953125],"RAW_MQ":[null,2.5],"REF":["C","G"],"ReadPosRankSum":[null,-0.10100000351667404],"SB":[null,"[0, 0, 0, 0]"]}} 21: 21: 0.021 s: api query_variant_calls with JSONVariantCallProcessor 21: 0.000 s: Test genomicsdb demo test case 21: 0.014 s: api generate_vcf direct 21: 11:38:20.658 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.658 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.658 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 0.006 s: api generate_vcf with json 21: 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511971 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.665 WARN NativeGenomicsDB - pid=511876 tid=511971 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511974 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.665 WARN NativeGenomicsDB - pid=511876 tid=511974 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511975 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.665 WARN NativeGenomicsDB - pid=511876 tid=511975 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511970 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.665 WARN NativeGenomicsDB - pid=511876 tid=511970 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511976 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.665 WARN NativeGenomicsDB - pid=511876 tid=511976 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511970 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511977 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.665 WARN NativeGenomicsDB - pid=511876 tid=511977 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.666 DEBUG NativeGenomicsDB - pid=511876 tid=511975 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.666 DEBUG NativeGenomicsDB - pid=511876 tid=511973 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.666 WARN NativeGenomicsDB - pid=511876 tid=511973 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.666 DEBUG NativeGenomicsDB - pid=511876 tid=511976 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.666 DEBUG NativeGenomicsDB - pid=511876 tid=511971 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.666 DEBUG NativeGenomicsDB - pid=511876 tid=511974 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.667 DEBUG NativeGenomicsDB - pid=511876 tid=511972 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.667 WARN NativeGenomicsDB - pid=511876 tid=511972 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.667 DEBUG NativeGenomicsDB - pid=511876 tid=511977 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.668 DEBUG NativeGenomicsDB - pid=511876 tid=511973 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.668 DEBUG NativeGenomicsDB - pid=511876 tid=511972 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 9: =============================================================================== 9: All tests passed (10488234 assertions in 9 test cases) 9: 16/22 Test #9: test_tiledb_utils ................ Passed 0.54 sec 21: 0.065 s: api generate_vcf with json multiple threads 21: 11:38:20.728 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.729 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.729 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.730 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.730 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.730 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.730 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.735 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.735 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.736 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.736 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.736 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.737 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.737 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.742 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 21: 11:38:20.742 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.742 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.743 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 21: 11:38:20.743 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 21: 11:38:20.743 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 21: 11:38:20.743 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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: 0.018 s: api annotate query_variant_calls with test datasource 0 21: =============================================================================== 21: test cases: 26 | 25 passed | 1 failed 21: assertions: 1531 | 1530 passed | 1 failed 21: 17/22 Test #21: api_tests ........................***Failed 0.56 sec Randomness seeded to: 1952005377 0.002 s: utils 0.000 s: api empty_args 0.019 s: api query_variants direct DP 0.008 s: api query_variants direct DP with huge row range 0.009 s: api query_variants direct DP with huge disjoint row ranges 0.010 s: api query_variants direct DP with range composed of multiple points 0.016 s: api query_variants direct DP with range composed of overlapping ranges 11:38:20.292 ERROR NativeGenomicsDB - pid=511876 tid=511876 Query interval 0:-100-1 is out of bounds 0.004 s: api query_variants direct DP with invalid row range 0.021 s: api query_variants direct DP and GT 0.013 s: api query_variants direct DP and GT with PP 11:38:20.329 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.330 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.330 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.335 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.335 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.336 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.341 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.341 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.342 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 0.015 s: api query_variants with json 11:38:20.342 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.342 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.342 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/ws/t0_1_2/.__consolidation_lock 11:38:20.349 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.349 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.349 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.355 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.355 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.355 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 0.013 s: api query variants with json string 11:38:20.355 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.355 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.356 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 0.005 s: api query variants with enabled shared posixfs optimizations ---------------- Interval:[0,9223372036854775806] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] DP:76 ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] DP:76 0.018 s: api query_variant_calls direct ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 0.015 s: api query_variant_calls direct DP and GT ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0|0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 0.015 s: api query_variant_calls direct DP and GT with PP 11:38:20.410 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.410 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.410 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] DP:76 11:38:20.415 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.415 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.415 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.419 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.419 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.419 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 0.010 s: api query_variant_calls with json 11:38:20.420 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.420 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.420 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.420 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.420 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.421 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.421 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.426 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.426 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.426 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.426 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.426 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.427 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.427 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.432 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.432 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.432 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.432 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.432 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.433 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.433 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 0.005 s: Try query with contig intervals instead of tiledb column intervals 0.017 s: api query_variant_calls with protobuf 11:38:20.436 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.436 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.437 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.437 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.437 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.437 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.437 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.442 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.442 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.443 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.443 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.443 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.443 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.443 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.449 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.449 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.449 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.449 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.449 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.450 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.450 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 0.005 s: Try query with a filter 0.017 s: api query_variant_calls with protobuf 11:38:20.453 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.453 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.454 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.454 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.454 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.454 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.454 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.459 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.460 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.460 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.460 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.460 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.460 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.460 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.466 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.466 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.466 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.466 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.466 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.467 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.467 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 0.004 s: Try query with a filter and workspace with GT ploidy 0.016 s: api query_variant_calls with protobuf 11:38:20.470 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.470 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.470 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.471 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.471 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.471 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.471 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.476 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.476 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.476 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.477 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.477 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.477 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.477 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.482 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.482 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.483 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.483 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.483 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.483 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.483 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 0.004 s: Try query with a filter and a small segment size to force TileDB buffers overflow 0.017 s: api query_variant_calls with protobuf 11:38:20.487 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.487 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.487 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.487 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.487 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.488 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.488 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.493 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.493 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.493 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.494 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.494 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.494 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.494 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.499 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.499 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.499 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.500 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.500 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.500 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.500 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 0.004 s: Try query with POS and ROW with no match 0.017 s: api query_variant_calls with protobuf 11:38:20.504 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.504 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.504 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.504 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.504 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.504 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.504 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.510 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.510 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.510 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.511 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.511 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.511 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.511 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.516 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.516 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.516 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.516 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.516 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.517 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.517 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 0.004 s: Try query with POS and ROW 0.017 s: api query_variant_calls with protobuf 11:38:20.520 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.520 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.521 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.521 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.521 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.521 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.521 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.526 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.526 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.526 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.527 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.527 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.527 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.527 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.532 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.532 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.532 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.533 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.533 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.533 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.533 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 0.004 s: Try query with ISHOMREF 0.016 s: api query_variant_calls with protobuf 11:38:20.536 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.536 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.537 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.537 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.537 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.537 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.537 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.542 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.542 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.543 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.543 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.543 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.543 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.543 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.548 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.548 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.549 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.549 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.549 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.549 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.549 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 0.005 s: Try query with ISHOMREF 0.016 s: api query_variant_calls with protobuf 11:38:20.553 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.553 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.553 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.554 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.554 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.554 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.554 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.559 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.559 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.559 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.560 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.560 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.560 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.560 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.565 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.565 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.566 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.566 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.566 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.566 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.566 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 0.004 s: Try query with ISHOMREF 0.017 s: api query_variant_calls with protobuf 11:38:20.570 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.570 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.570 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.570 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.570 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.571 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.571 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.576 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.576 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.576 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.576 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.576 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.576 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.577 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] sample=HG00141 row=0 position=12140 genomic_interval=1:12141,12295 genomic_fields REF:C ALT:[] GT:0/0 sample=HG01958 row=1 position=12144 genomic_interval=1:12145,12277 genomic_fields REF:C ALT:[] GT:0/0 sample=HG00141 row=0 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 sample=HG01958 row=1 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[T, ] GT:1/1 DP:120 sample=HG01530 row=2 position=17384 genomic_interval=1:17385,17385 genomic_fields REF:G ALT:[A, ] GT:0/1 DP:76 11:38:20.582 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.582 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.582 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.583 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.583 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.583 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.583 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 0.004 s: Try query with ISHOMREF 0.017 s: api query_variant_calls with protobuf 0.004 s: Base configuration 0.005 s: api query_variant_calls with protobuf and config 11:38:20.592 ERROR NativeGenomicsDB - pid=511876 tid=511876 Could not parse query_configuration. Only protobuf QueryConfiguration binary strings accepted as input argument 0.000 s: Subset Array with pb string that is not Query or ExportConfiguration 0.001 s: api query_variant_calls with protobuf and config 0.002 s: Subset Array using QueryConfiguration 0.003 s: api query_variant_calls with protobuf and config 0.003 s: Subset Array using ExportConfiguration 0.004 s: api query_variant_calls with protobuf and config 0.002 s: Subset Array using QueryConfiguration - two intervals 0.003 s: api query_variant_calls with protobuf and config 0.004 s: Subset Array using QueryConfiguration - multiple queries 0.005 s: api query_variant_calls with protobuf and config 0.004 s: Test filter test for 0 0.004 s: api query_variant_calls with protobuf new 0.004 s: Test filter test for 1 0.004 s: api query_variant_calls with protobuf new 0.004 s: Test filter test for 2 0.004 s: api query_variant_calls with protobuf new 0.004 s: Test filter test for 3 0.004 s: api query_variant_calls with protobuf new 273 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"DP":[null,null],"GT":["C/C","G/A"],"REF":["C","G"]},"HG01530":{"CHR":["1"],"POS":[17385],"DP":[76],"GT":["G/A"],"REF":["G"]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"DP":[null,120],"GT":["C/C","T/T"],"REF":["C","G"]}} 207 {"FIELD":["CHR","POS","DP","GT","REF"],"HG00141":[["1",12141,null,"C/C","C"],["1",17385,null,"G/A","G"]],"HG01530":[["1",17385,76,"G/A","G"]],"HG01958":[["1",12145,null,"C/C","C"],["1",17385,120,"T/T","G"]]} 37 {"HG00141":2,"HG01530":1,"HG01958":2} 15 {"num_calls":5} 15 {"num_calls":5} 31 ["HG00141","HG01530","HG01958"] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ api_tests is a Catch2 v3.7.1 host application. Run with -? for options ------------------------------------------------------------------------------- api query_variant_calls with JSONVariantCallProcessor ------------------------------------------------------------------------------- ./src/test/cpp/src/test_genomicsdb_api.cc:887 ............................................................................... ./src/test/cpp/src/test_genomicsdb_api.cc:997: FAILED: CHECK( output.length() == 1805 ) with expansion: 1807 (0x70f) == 1805 (0x70d) 1807 {"HG00141":{"CHR":["1","1"],"POS":[12141,17385],"AD":[null,58],"BaseQRankSum":[null,-2.0959999561309816],"ClippingRankSum":[null,-1.8589999675750733],"DP":[null,null],"DP_FORMAT":[2,80],"DS":["1","1"],"FILTER":[null,0],"GQ":[0,99],"GT":["C/C","G/A"],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MIN_DP":[0,null],"MLEAC":[null,1],"MLEAF":[null,0.5],"MQ":[null,31.719999313354493],"MQ0":[null,8],"MQRankSum":[null,-0.32899999618530276],"PGT":[null,"0|1"],"PID":[null,"17385_G_A"],"PL":[0,504],"QUAL":[null,475.7699890136719],"RAW_MQ":[null,5.5],"REF":["C","G"],"ReadPosRankSum":[null,0.004999999888241291],"SB":[null,"[58, 0, 22, 0]"]},"HG01530":{"CHR":["1"],"POS":[17385],"AD":[40],"BaseQRankSum":[1.0460000038146973],"ClippingRankSum":[-2.242000102996826],"DP":[76],"DP_FORMAT":[76],"DS":["127"],"FILTER":[null],"GQ":[99],"GT":["G/A"],"HaplotypeScore":[null],"InbreedingCoeff":[null],"MIN_DP":[null],"MLEAC":[1],"MLEAF":[0.5],"MQ":[59.369998931884769],"MQ0":[0],"MQRankSum":[-0.4320000112056732],"PGT":[null],"PID":[null],"PL":[1018],"QUAL":[989.77001953125],"RAW_MQ":[null],"REF":["G"],"ReadPosRankSum":[2.055000066757202],"SB":["[9, 31, 13, 23]"]},"HG01958":{"CHR":["1","1"],"POS":[12145,17385],"AD":[null,0],"BaseQRankSum":[null,-2.0739998817443849],"ClippingRankSum":[null,0.5550000071525574],"DP":[null,120],"DP_FORMAT":[3,120],"DS":["1","127"],"FILTER":[null,0],"GQ":[0,99],"GT":["C/C","T/T"],"HaplotypeScore":[null,null],"InbreedingCoeff":[null,null],"MIN_DP":[0,null],"MLEAC":[null,2],"MLEAF":[null,1.0],"MQ":[null,29.81999969482422],"MQ0":[null,3],"MQRankSum":[null,-1.36899995803833],"PGT":[null,"0|1"],"PID":[null,"17385_G_T"],"PL":[0,3336],"QUAL":[null,3302.77001953125],"RAW_MQ":[null,2.5],"REF":["C","G"],"ReadPosRankSum":[null,-0.10100000351667404],"SB":[null,"[0, 0, 0, 0]"]}} 0.021 s: api query_variant_calls with JSONVariantCallProcessor 0.000 s: Test genomicsdb demo test case 0.014 s: api generate_vcf direct 11:38:20.658 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.658 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.658 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 0.006 s: api generate_vcf with json 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511971 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.665 WARN NativeGenomicsDB - pid=511876 tid=511971 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511974 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.665 WARN NativeGenomicsDB - pid=511876 tid=511974 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511975 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.665 WARN NativeGenomicsDB - pid=511876 tid=511975 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511970 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.665 WARN NativeGenomicsDB - pid=511876 tid=511970 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511976 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.665 WARN NativeGenomicsDB - pid=511876 tid=511976 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511970 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.665 DEBUG NativeGenomicsDB - pid=511876 tid=511977 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.665 WARN NativeGenomicsDB - pid=511876 tid=511977 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.666 DEBUG NativeGenomicsDB - pid=511876 tid=511975 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.666 DEBUG NativeGenomicsDB - pid=511876 tid=511973 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.666 WARN NativeGenomicsDB - pid=511876 tid=511973 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.666 DEBUG NativeGenomicsDB - pid=511876 tid=511976 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.666 DEBUG NativeGenomicsDB - pid=511876 tid=511971 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.666 DEBUG NativeGenomicsDB - pid=511876 tid=511974 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.667 DEBUG NativeGenomicsDB - pid=511876 tid=511972 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.667 WARN NativeGenomicsDB - pid=511876 tid=511972 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.667 DEBUG NativeGenomicsDB - pid=511876 tid=511977 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.668 DEBUG NativeGenomicsDB - pid=511876 tid=511973 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.668 DEBUG NativeGenomicsDB - pid=511876 tid=511972 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 0.065 s: api generate_vcf with json multiple threads 11:38:20.728 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.729 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.729 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.730 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.730 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.730 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.730 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.735 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.735 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.736 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.736 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.736 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.737 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.737 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.742 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(column_partitions[0].begin): invalid value 0 for type type.googleapis.com/GenomicsDBColumn 11:38:20.742 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize loader file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/loader.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.742 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.743 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(contigs): missing field name 11:38:20.743 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize vid mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/vid.json as protobuf. Trying to parse as a regular JSON file instead 11:38:20.743 DEBUG NativeGenomicsDB - pid=511876 tid=511876 json file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json does not seem to be serialized protobuf - error:INVALID_ARGUMENT:(callsets): missing field sample_name 11:38:20.743 WARN NativeGenomicsDB - pid=511876 tid=511876 Could not deserialize callset mapping file /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/callset_t0_1_2.json as protobuf. Trying to parse as a regular JSON file instead ---------------- Interval:[0,1000000000] ---------------- Interval:[0,1000000000] 0.018 s: api annotate query_variant_calls with test datasource 0 =============================================================================== test cases: 26 | 25 passed | 1 failed assertions: 1531 | 1530 passed | 1 failed 22: 11:38:20.782 INFO NativeGenomicsDB - pid=511997 tid=511997 Reading 1 vcfs 22: 11:38:20.784 INFO NativeGenomicsDB - pid=511997 tid=511997 [STAGE 1 / 3] Reading 1 / 1 = 100.00% 22: 11:38:20.812 INFO NativeGenomicsDB - pid=511997 tid=511997 [STAGE 2 / 3] read_next_batch 0 / 1 = 0.00% 22: 11:38:20.813 INFO NativeGenomicsDB - pid=511997 tid=511997 [STAGE 3 / 3] progress: 12140 / 249250620 = 0.00% 22: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 22: [TileDB::Codec] Error: Could not compress with GZIP. 22: [TileDB::WriteState] Error: Cannot compress tile for /tmp/test_tools-GenomicsDB-Aido7vOI3L/ws_28875/1$1$249250621/.__c2a4dc95-c17b-4006-bffa-7491baef890c281473348636736_1772062700797/END.tdb. 22: 11:38:20.814 ERROR NativeGenomicsDB - pid=511997 tid=511997 VariantStorageManagerException exception : Error while finalizing GenomicsDB array 1$1$249250621 : [TileDB::WriteState] Error: Cannot compress tile for /tmp/test_tools-GenomicsDB-Aido7vOI3L/ws_28875/1$1$249250621/.__c2a4dc95-c17b-4006-bffa-7491baef890c281473348636736_1772062700797/END.tdb 22: command 'vcf2genomicsdb --progress /tmp/test_tools-GenomicsDB-Aido7vOI3L/ws_28875/loader.json' returned 139 unexpectedly 18/22 Test #22: tools_tests ......................***Failed 0.63 sec 11:38:20.782 INFO NativeGenomicsDB - pid=511997 tid=511997 Reading 1 vcfs 11:38:20.784 INFO NativeGenomicsDB - pid=511997 tid=511997 [STAGE 1 / 3] Reading 1 / 1 = 100.00% 11:38:20.812 INFO NativeGenomicsDB - pid=511997 tid=511997 [STAGE 2 / 3] read_next_batch 0 / 1 = 0.00% 11:38:20.813 INFO NativeGenomicsDB - pid=511997 tid=511997 [STAGE 3 / 3] progress: 12140 / 249250620 = 0.00% [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR [TileDB::Codec] Error: Could not compress with GZIP. [TileDB::WriteState] Error: Cannot compress tile for /tmp/test_tools-GenomicsDB-Aido7vOI3L/ws_28875/1$1$249250621/.__c2a4dc95-c17b-4006-bffa-7491baef890c281473348636736_1772062700797/END.tdb. 11:38:20.814 ERROR NativeGenomicsDB - pid=511997 tid=511997 VariantStorageManagerException exception : Error while finalizing GenomicsDB array 1$1$249250621 : [TileDB::WriteState] Error: Cannot compress tile for /tmp/test_tools-GenomicsDB-Aido7vOI3L/ws_28875/1$1$249250621/.__c2a4dc95-c17b-4006-bffa-7491baef890c281473348636736_1772062700797/END.tdb command 'vcf2genomicsdb --progress /tmp/test_tools-GenomicsDB-Aido7vOI3L/ws_28875/loader.json' returned 139 unexpectedly 14: Wed Feb 25 11:38:21 2026 Memory stats Tracking memory usage END size=6MB resident=1MB share=1MB text=612KB lib=0 data=536KB dt=0 14: =============================================================================== 14: test cases: 1 | 1 passed 14: assertions: - none - 14: 19/22 Test #14: test_mem_utils ................... Passed 1.01 sec 8: Randomness seeded to: 844400243 7: Randomness seeded to: 1044512066 18: =============================================================================== 18: All tests passed (450703 assertions in 3 test cases) 18: 20/22 Test #18: test_storage_buffer .............. Passed 1.23 sec 8: 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] =============================================================================== 8: All tests passed (13188515 assertions in 15 test cases) 8: 21/22 Test #8: test_sparse_array_api ............ Passed 3.03 sec 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 (118961719 assertions in 4 test cases) 7: 22/22 Test #7: test_dense_array_api ............. Passed 4.19 sec 73% tests passed, 6 tests failed out of 22 Total Test time (real) = 4.21 sec The following tests FAILED: 5 - test_array_iterator (Failed) 6 - test_array_schema_api (Failed) 19 - ci_tests (Failed) 20 - ctests (Failed) 21 - api_tests (Failed) 22 - tools_tests (Failed) Errors while running CTest make[2]: *** [Makefile:74: test] Error 8 make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' dh_auto_test: error: cd obj-aarch64-linux-gnu && make -j12 test ARGS\+=--verbose ARGS\+=-j12 returned exit code 2 make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4' debian/rules override_dh_auto_test-indep make[1]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4' dh_auto_build cd obj-aarch64-linux-gnu && make -j12 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' /usr/bin/cmake -S/build/reproducible-path/genomicsdb-1.5.4 -B/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/CMakeFiles /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/depend make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/depend make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'CMakeFiles/protobuf_ep.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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/codec/codec_filter_bit_shuffle.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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_delta_encode.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". 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Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/thread_pool.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". [ 0%] Built target protobuf_ep Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_buffer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/depend Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_manager_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage/storage_posixfs.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/resources /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target genomicsdb-hts make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target TILEDB_CORE_OBJECTS make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build [ 13%] Built target genomicsdb-hts [ 13%] Built target PROTOBUF_GENERATED_CXX_TARGET make -f src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build.make src/main/CMakeFiles/GenomicsDB_library_object_files.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/DependInfo.cmake "--color=" [ 25%] Built target TILEDB_CORE_OBJECTS Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/depend Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make -f genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build.make genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/depend Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake "--color=" 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-1.5.4/obj-aarch64-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/annotation_service.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake "--color=" 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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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/loader/genomicsdb_importer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/build'. 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-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/compiler_depend.internal". 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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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/loader/tiledb_loader_text_file.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' 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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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/query_operations/variant_operations.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' 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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/depend 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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake "--color=" [ 26%] Built target tiledb_shared make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_print_array_schema Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_array_schema 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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/compiler_depend.internal". make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build Consolidate compiler generated dependencies of target test_dense_array_api Consolidate compiler generated dependencies of target test_tiledb_utils Consolidate compiler generated dependencies of target test_array_schema_api make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target test_sparse_array_api make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/build Consolidate compiler generated dependencies of target test_codec_filter make -f genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target GenomicsDB_library_object_files make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build Consolidate compiler generated dependencies of target test_array_iterator Consolidate compiler generated dependencies of target test_print_book_keeping Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target test_codec make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 27%] Built target test_sparse_array_api make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/depend [ 27%] Built target test_array_schema [ 28%] Built target test_print_array_schema make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake "--color=" [ 29%] Built target test_sparse_array_benchmark [ 29%] Built target test_codec_filter make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/depend [ 30%] Built target test_array_schema_api [ 31%] Built target test_dense_array_api make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend [ 32%] Built target test_tiledb_utils make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.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 [ 32%] Built target test_print_book_keeping make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/depend [ 33%] Built target test_codec make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/GenomicsDB_library_object_files.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/compiler_depend.internal". [ 34%] Built target test_array_iterator Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/src/tiledb_array_3d.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_3d Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/src/expressions/test_filter_api.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/depend Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_expressions make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_3d.dir/build Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target test_posixfs make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build Consolidate compiler generated dependencies of target test_utils Consolidate compiler generated dependencies of target test_uri Consolidate compiler generated dependencies of target test_filter_api Consolidate compiler generated dependencies of target test_mem_utils make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_filter_api.dir/build make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build Dependencies file "genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target test_storage_buffer make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_aio_read_dense [ 49%] Built target GenomicsDB_library_object_files make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake "--color=" [ 50%] Built target test_utils Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target tiledb_array_consolidate [ 50%] Built target test_expressions [ 51%] Built target tiledb_array_3d Consolidate compiler generated dependencies of target tiledb_array_aio_write_dense make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/build [ 52%] Built target test_posixfs [ 53%] Built target test_filter_api make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 53%] Built target test_uri Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/build Consolidate compiler generated dependencies of target tiledb_array_create_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/depend make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.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/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 53%] Built target test_mem_utils make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 53%] Built target tiledb_array_aio_read_dense make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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 [ 53%] Built target test_storage_buffer make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/depend Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_create_sparse Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". [ 53%] Built target tiledb_array_create_dense Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_dense Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_1 [ 54%] Built target tiledb_array_aio_write_dense Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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.dir/src/tiledb_array_iterator_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/compiler_depend.internal". [ 55%] Built target tiledb_array_consolidate 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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse_filter Consolidate compiler generated dependencies of target tiledb_array_iterator_sparse make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/depend Consolidate compiler generated dependencies of 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-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_read_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/src/tiledb_array_parallel_read_mpi_io_dense.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/compiler_depend.internal". [ 55%] Built target tiledb_array_parallel_consolidate_dense Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_parallel_read_mpi_io_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/depend Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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_sparse_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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_consolidate_sparse.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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 genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build Consolidate compiler generated dependencies of target tiledb_array_parallel_read_sparse_2 Consolidate compiler generated dependencies of target tiledb_array_parallel_consolidate_sparse make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 56%] Built target tiledb_array_iterator_dense [ 56%] Built target tiledb_array_create_sparse [ 56%] Built target tiledb_array_parallel_read_dense_1 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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 -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 57%] Built target tiledb_array_iterator_sparse_filter make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/depend [ 58%] Built target tiledb_array_iterator_sparse [ 59%] Built target tiledb_array_parallel_read_dense_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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/depend cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_parallel_write_dense_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 60%] Built target tiledb_array_parallel_read_mpi_io_dense [ 60%] Built target tiledb_array_parallel_read_sparse_1 [ 61%] Built target tiledb_array_parallel_read_sparse_2 [ 62%] Built target tiledb_array_parallel_write_dense_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/compiler_depend.internal". [ 63%] Built target tiledb_array_parallel_consolidate_sparse Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.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/depend Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.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/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 Consolidate compiler generated dependencies of target tiledb_array_primitive 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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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/depend Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/compiler_depend.internal". [ 63%] Built target tiledb_array_parallel_write_dense_2 Consolidate compiler generated dependencies of target tiledb_array_read_dense_1 Consolidate compiler generated dependencies of target tiledb_array_read_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_parallel_write_sparse_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_read_dense_3 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/compiler_depend.internal". make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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/depend Consolidate compiler generated dependencies of target tiledb_array_read_sparse_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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_sorted make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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_read_dense_1.dir/build'. make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_read_sparse_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_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/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 64%] Built target tiledb_array_primitive Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/compiler_depend.internal". [ 64%] Built target tiledb_array_parallel_write_sparse_2 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". [ 65%] Built target tiledb_array_parallel_write_sparse_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_read_sparse_filter_2 [ 66%] Built target tiledb_array_read_dense_1 Consolidate compiler generated dependencies of target tiledb_array_read_sparse_sorted [ 67%] Built target tiledb_array_read_dense_3 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_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 -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-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake "--color=" [ 67%] Built target tiledb_array_read_dense_2 [ 68%] Built target tiledb_array_read_dense_sorted make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/depend 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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake "--color=" [ 69%] Built target tiledb_array_read_sparse_2 [ 69%] Built target tiledb_array_read_sparse_filter_1 [ 69%] Built target tiledb_array_read_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/depend Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake "--color=" 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_update_dense_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.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_array_write_dense_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_update_dense_2 Consolidate compiler generated dependencies of target tiledb_array_write_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/depend Consolidate compiler generated dependencies of target tiledb_array_update_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". [ 71%] Built target tiledb_array_read_sparse_filter_2 [ 71%] Built target tiledb_array_read_sparse_sorted Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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/depend Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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_sorted Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.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 Consolidate compiler generated dependencies of target tiledb_array_update_sparse_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_array_write_dense_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_write_sparse_1 Consolidate compiler generated dependencies of target tiledb_array_write_sparse_2 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". [ 71%] Built target tiledb_array_update_dense_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_array_write_sparse_3 [ 72%] Built target tiledb_array_update_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.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/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 73%] Built target tiledb_array_write_dense_1 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' [ 74%] Built target tiledb_array_write_dense_sorted make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_catching_errors Consolidate compiler generated dependencies of target tiledb_array_write_sparse_4 [ 75%] Built target tiledb_array_update_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 75%] Built target tiledb_array_update_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/depend [ 76%] Built target tiledb_array_write_sparse_1 Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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 [ 76%] Built target tiledb_array_write_dense_2 Consolidate compiler generated dependencies of target tiledb_clear_delete_move [ 76%] Built target tiledb_array_write_sparse_2 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/depend Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/compiler_depend.internal". [ 77%] Built target tiledb_array_write_sparse_3 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_ls make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build Consolidate compiler generated dependencies of target tiledb_delete Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target tiledb_ls_workspaces make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_config make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake "--color=" make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' 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-1.5.4/obj-aarch64-linux-gnu' [ 77%] Built target tiledb_array_write_sparse_4 make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build [ 78%] Built target tiledb_catching_errors Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.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 make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_metadata_consolidate Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target tiledb_metadata_iterator Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target tiledb_metadata_create Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". [ 80%] Built target tiledb_ls Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/compiler_depend.internal". [ 80%] Built target tiledb_clear_delete_move Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/compiler_depend.internal". make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.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]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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 Consolidate compiler generated dependencies of target tiledb_metadata_read 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-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/build'. make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake "--color=" make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 80%] Built target tiledb_config [ 81%] Built target tiledb_delete make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/compiler_depend.internal". make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/depend Consolidate compiler generated dependencies of target tiledb_metadata_update make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake "--color=" Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/compiler_depend.internal". Dependencies file "genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build [ 81%] Built target tiledb_ls_workspaces Consolidate compiler generated dependencies of target tiledb_metadata_write Consolidate compiler generated dependencies of target tiledb_workspace_group_create Dependencies file "src/main/CMakeFiles/tiledbgenomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/compiler_depend.internal". [ 82%] Built target tiledb_metadata_iterator make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target tiledbgenomicsdb [ 83%] Built target tiledb_metadata_consolidate make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build [ 83%] Built target tiledb_metadata_create make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/tiledbgenomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 84%] Built target tiledb_metadata_read [ 84%] Built target tiledb_metadata_primitive make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build [ 85%] Built target tiledb_workspace_group_create [ 86%] Built target tiledb_metadata_update make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 86%] Built target tiledbgenomicsdb [ 86%] Built target tiledb_metadata_write make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake "--color=" [ 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 make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/depend make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/depend make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake "--color=" make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake "--color=" make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake "--color=" cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake "--color=" 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Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". Dependencies file "src/main/CMakeFiles/genomicsdbjni.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/compiler_depend.internal". make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake "--color=" Consolidate compiler generated dependencies of target genomicsdbjni make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "tools/CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/gt_mpi_gather.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.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-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/src/test_genomicsdb_demo.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf2genomicsdb_init.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target gt_mpi_gather Consolidate compiler generated dependencies of target vcf2genomicsdb Dependencies file "src/test/cpp/CMakeFiles/api_tests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target create_genomicsdb_workspace make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_genomicsdb_demo Consolidate compiler generated dependencies of target vcf2genomicsdb_init Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_config.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target consolidate_genomicsdb_array make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/build make -f src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build.make src/test/cpp/CMakeFiles/test_genomicsdb_demo.dir/build make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/build Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/build cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/example /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake "--color=" Dependencies file "tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target api_tests Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "tools/CMakeFiles/vcfdiff.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/compiler_depend.internal". make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/build Dependencies file "tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/compiler_depend.internal". Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_mem_utils.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Dependencies file "tools/CMakeFiles/vcf_histogram.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/create_genomicsdb_workspace.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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/src/test_multid_vector.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/gt_mpi_gather.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'src/main/CMakeFiles/genomicsdbjni.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Consolidate compiler generated dependencies of target vcfdiff Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target vcf_histogram make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/consolidate_genomicsdb_array.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/src/test_query_variants.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/compiler_depend.internal". make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "src/test/cpp/CMakeFiles/ctests.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/api_tests.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf2genomicsdb_init.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcfdiff.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/compiler_depend.internal". make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'tools/CMakeFiles/vcf_histogram.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' Dependencies file "example/CMakeFiles/test_genomicsdb_bcf_generator.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_genomicsdb_bcf_generator [ 87%] Built target gt_mpi_gather [ 87%] Built target test_genomicsdb_demo [ 88%] Built target vcf2genomicsdb make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build [ 88%] Built target create_genomicsdb_workspace [ 89%] Built target genomicsdbjni make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-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-1.5.4/obj-aarch64-linux-gnu' make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend [ 90%] Built target consolidate_genomicsdb_array [ 91%] Built target api_tests make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' cd /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/reproducible-path/genomicsdb-1.5.4 /build/reproducible-path/genomicsdb-1.5.4/example /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake "--color=" [ 92%] Built target vcf2genomicsdb_init [ 92%] Built target vcf_histogram [ 93%] Built target vcfdiff Consolidate compiler generated dependencies of target ctests make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build [ 94%] Built target test_genomicsdb_bcf_generator Dependencies file "example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/compiler_depend.internal". Dependencies file "example/CMakeFiles/test_genomicsdb_importer.dir/link.d" is newer than depends file "/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/compiler_depend.internal". Consolidate compiler generated dependencies of target test_genomicsdb_importer make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'src/test/cpp/CMakeFiles/ctests.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/build make[4]: Entering directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'example/CMakeFiles/test_genomicsdb_importer.dir/build'. make[4]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' [ 99%] Built target ctests [100%] Built target test_genomicsdb_importer make[3]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu' # Testing the Java part. We extend LD_LIBRARY_PATH because some test code is # run without surefire. LD_LIBRARY_PATH=":obj-aarch64-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-1.5.4 -Dclassworlds.conf=/etc/maven/m2-debian.conf -Dproperties.file.manual=/build/reproducible-path/genomicsdb-1.5.4/debian/maven.properties org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.4/debian -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.4/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 1.5.4 [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-1.5.4/build/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.4/src/main/java added. [INFO] Source directory: /build/reproducible-path/genomicsdb-1.5.4/src/main/scala added. [INFO] [INFO] --- resources:3.3.1:resources (default-resources) @ genomicsdb --- [INFO] skip non existing resourceDirectory /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/src/main/java/org/genomicsdb/reader/GenomicsDBTimer.java:[37,14] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[79,39] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/reader/GenomicsDBFeatureReader.java:[206,31] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/src/main/java/org/genomicsdb/model/ImportConfig.java:[76,36] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[224,46] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[99,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[109,19] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/importer/GenomicsDBImporter.java:[395,80] previous possible 'this' escape happens here via invocation [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[54,27] possible 'this' escape before subclass is fully initialized [WARNING] /build/reproducible-path/genomicsdb-1.5.4/src/main/java/org/genomicsdb/model/CommandLineImportConfig.java:[139,58] 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-1.5.4/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-1.5.4/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-1.5.4/src/test/resources [INFO] [INFO] --- antrun:3.1.0:run (unzip-test-artifacts) @ genomicsdb --- [INFO] Executing tasks [INFO] [untar] Expanding: /build/reproducible-path/genomicsdb-1.5.4/build/test/test.tar into /build/reproducible-path/genomicsdb-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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-1.5.4/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 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 ERROR StatusLogger Reconfiguration failed: No configuration found for '639fee48' at 'null' in 'null' [WARNING] Corrupted STDOUT by directly writing to native stream in forked JVM 1. See FAQ web page and the dump file /build/reproducible-path/genomicsdb-1.5.4/build/surefire-reports/2026-02-25T11-38-34_430-jvmRun1.dumpstream [INFO] [INFO] Results: [INFO] [INFO] Tests run: 0, Failures: 0, Errors: 0, Skipped: 0 [INFO] [INFO] ------------------------------------------------------------------------ [INFO] BUILD FAILURE [INFO] ------------------------------------------------------------------------ [INFO] Total time: 7.811 s [INFO] Finished at: 2026-02-25T11:38:36-12:00 [INFO] ------------------------------------------------------------------------ [ERROR] Failed to execute goal org.apache.maven.plugins:maven-surefire-plugin:2.22.3:test (default-test) on project genomicsdb: There are test failures. [ERROR] [ERROR] Please refer to /build/reproducible-path/genomicsdb-1.5.4/build/surefire-reports for the individual test results. [ERROR] Please refer to dump files (if any exist) [date].dump, [date]-jvmRun[N].dump and [date].dumpstream. [ERROR] The forked VM terminated without properly saying goodbye. VM crash or System.exit called? [ERROR] Command was /bin/sh -c cd '/build/reproducible-path/genomicsdb-1.5.4' && '/usr/lib/jvm/java-21-openjdk-arm64/bin/java' '-Djava.library.path=:obj-aarch64-linux-gnu/src/main:/usr/java/packages/lib:/usr/lib/aarch64-linux-gnu/jni:/lib/aarch64-linux-gnu:/usr/lib/aarch64-linux-gnu:/usr/lib/jni:/lib:/usr/lib:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main' '-jar' '/build/reproducible-path/genomicsdb-1.5.4/build/surefire/surefirebooter4355609578778256535.jar' '/build/reproducible-path/genomicsdb-1.5.4/build/surefire' '2026-02-25T11-38-34_430-jvmRun1' 'surefire217653470153719741tmp' 'surefire_02702153968679162996tmp' [ERROR] Error occurred in starting fork, check output in log [ERROR] Process Exit Code: 134 [ERROR] Crashed tests: [ERROR] org.genomicsdb.importer.GenomicsDBImporterSpec [ERROR] org.apache.maven.surefire.booter.SurefireBooterForkException: The forked VM terminated without properly saying goodbye. VM crash or System.exit called? [ERROR] Command was /bin/sh -c cd '/build/reproducible-path/genomicsdb-1.5.4' && '/usr/lib/jvm/java-21-openjdk-arm64/bin/java' '-Djava.library.path=:obj-aarch64-linux-gnu/src/main:/usr/java/packages/lib:/usr/lib/aarch64-linux-gnu/jni:/lib/aarch64-linux-gnu:/usr/lib/aarch64-linux-gnu:/usr/lib/jni:/lib:/usr/lib:/build/reproducible-path/genomicsdb-1.5.4/obj-aarch64-linux-gnu/src/main' '-jar' '/build/reproducible-path/genomicsdb-1.5.4/build/surefire/surefirebooter4355609578778256535.jar' '/build/reproducible-path/genomicsdb-1.5.4/build/surefire' '2026-02-25T11-38-34_430-jvmRun1' 'surefire217653470153719741tmp' 'surefire_02702153968679162996tmp' [ERROR] Error occurred in starting fork, check output in log [ERROR] Process Exit Code: 134 [ERROR] Crashed tests: [ERROR] org.genomicsdb.importer.GenomicsDBImporterSpec [ERROR] at org.apache.maven.plugin.surefire.booterclient.ForkStarter.fork(ForkStarter.java:669) [ERROR] at org.apache.maven.plugin.surefire.booterclient.ForkStarter.run(ForkStarter.java:282) [ERROR] at org.apache.maven.plugin.surefire.booterclient.ForkStarter.run(ForkStarter.java:245) [ERROR] at org.apache.maven.plugin.surefire.AbstractSurefireMojo.executeProvider(AbstractSurefireMojo.java:1186) [ERROR] at org.apache.maven.plugin.surefire.AbstractSurefireMojo.executeAfterPreconditionsChecked(AbstractSurefireMojo.java:1014) [ERROR] at org.apache.maven.plugin.surefire.AbstractSurefireMojo.execute(AbstractSurefireMojo.java:860) [ERROR] at org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo(DefaultBuildPluginManager.java:126) [ERROR] at org.apache.maven.lifecycle.internal.MojoExecutor.doExecute2(MojoExecutor.java:328) [ERROR] at org.apache.maven.lifecycle.internal.MojoExecutor.doExecute(MojoExecutor.java:316) [ERROR] at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:212) [ERROR] at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:174) [ERROR] at org.apache.maven.lifecycle.internal.MojoExecutor.access$000(MojoExecutor.java:75) [ERROR] at org.apache.maven.lifecycle.internal.MojoExecutor$1.run(MojoExecutor.java:162) [ERROR] at org.apache.maven.plugin.DefaultMojosExecutionStrategy.execute(DefaultMojosExecutionStrategy.java:39) [ERROR] at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:159) [ERROR] at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:105) [ERROR] at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:73) [ERROR] at org.apache.maven.lifecycle.internal.builder.singlethreaded.SingleThreadedBuilder.build(SingleThreadedBuilder.java:53) [ERROR] at org.apache.maven.lifecycle.internal.LifecycleStarter.execute(LifecycleStarter.java:118) [ERROR] at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:261) [ERROR] at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:173) [ERROR] at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:101) [ERROR] at org.apache.maven.cli.MavenCli.execute(MavenCli.java:906) [ERROR] at org.apache.maven.cli.MavenCli.doMain(MavenCli.java:283) [ERROR] at org.apache.maven.cli.MavenCli.main(MavenCli.java:206) [ERROR] at org.apache.maven.cli.MavenCli.main(MavenCli.java:196) [ERROR] at org.debian.maven.Wrapper.main(Wrapper.java:89) [ERROR] at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103) [ERROR] at java.base/java.lang.reflect.Method.invoke(Method.java:580) [ERROR] at org.codehaus.plexus.classworlds.launcher.Launcher.launchStandard(Launcher.java:322) [ERROR] at org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:235) [ERROR] at org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode(Launcher.java:407) [ERROR] at org.codehaus.plexus.classworlds.launcher.Launcher.main(Launcher.java:348) [ERROR] -> [Help 1] [ERROR] [ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch. [ERROR] Re-run Maven using the -X switch to enable full debug logging. [ERROR] [ERROR] For more information about the errors and possible solutions, please read the following articles: [ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoExecutionException dh_auto_test: error: /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-1.5.4 -Dclassworlds.conf=/etc/maven/m2-debian.conf -Dproperties.file.manual=/build/reproducible-path/genomicsdb-1.5.4/debian/maven.properties org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/genomicsdb-1.5.4/debian -Dmaven.repo.local=/build/reproducible-path/genomicsdb-1.5.4/debian/maven-repo --batch-mode test returned exit code 1 make[1]: *** [debian/rules:68: override_dh_auto_test-indep] Error 25 make[1]: Leaving directory '/build/reproducible-path/genomicsdb-1.5.4' make: *** [debian/rules:14: binary] Error 2 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 I: copying local configuration E: Failed autobuilding of package 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/480185 and its subdirectories Thu Jan 23 17:15:40 UTC 2025 W: No second build log, what happened?