debspawn 0.6.3 on cumin at 2023-06-21 22:30:00 UTC+0000 dpkg-source: info: extracting genomicsdb in genomicsdb-1.4.4 dpkg-source: info: unpacking genomicsdb_1.4.4.orig.tar.gz dpkg-source: info: unpacking genomicsdb_1.4.4.orig-genomicsdb-htslib.tar.gz dpkg-source: info: unpacking genomicsdb_1.4.4.orig-genomicsdb-tiledb.tar.gz dpkg-source: info: unpacking genomicsdb_1.4.4-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying string_view_needs_cxx17.patch 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 JsonFormat_methods.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 spelling.patch dpkg-source: info: applying handling_rpaths.patch dpkg-source: info: applying int_type_initialization.patch dpkg-source: info: applying missing_inclusion_tiledb_constants.patch dpkg-source: info: applying using_debian_packaged_catch2.patch ╔═══════════════════════╗ ║ Package build ║ ╚═══════════════════════╝ Package: genomicsdb Version: 1.4.4-3 Distribution: landing Architecture: arm64 Free space in workspace: 84.3GiB ┌───────────────────────────────────────┐ │ Preparing container for build │ └───────────────────────────────────────┘ Get:1 https://repo.pureos.net/pureos landing InRelease [8717 B] Get:2 https://repo.pureos.net/pureos landing/main all Packages [3713 kB] Fetched 3722 kB in 3s (1368 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages will be upgraded: dpkg-dev libdpkg-perl 2 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. Need to get 0 B/1960 kB of archives. After this operation, 1529 kB disk space will be freed. debconf: delaying package configuration, since apt-utils is not installed (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 ... 13138 files and directories currently installed.) Preparing to unpack .../dpkg-dev_1.21.22pureos1_all.deb ... Unpacking dpkg-dev (1.21.22pureos1) over (1.20.12pureos1) ... Preparing to unpack .../libdpkg-perl_1.21.22pureos1_all.deb ... Unpacking libdpkg-perl (1.21.22pureos1) over (1.20.12pureos1) ... Setting up libdpkg-perl (1.21.22pureos1) ... Setting up dpkg-dev (1.21.22pureos1) ... Reading package lists... Building dependency tree... Reading state information... build-essential is already the newest version (12.9). dpkg-dev is already the newest version (1.21.22pureos1). fakeroot is already the newest version (1.31-1.2). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. ┌───────────────────────────────────────────────┐ │ Installing package build-dependencies │ └───────────────────────────────────────────────┘ Note, using directory './' to get the build dependencies Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: adwaita-icon-theme ant at-spi2-common autoconf automake autopoint autotools-dev bsdextrautils ca-certificates-java catch2 chrpath cmake cmake-data dctrl-tools debhelper default-jdk default-jdk-headless default-jre default-jre-headless devscripts dh-autoreconf dh-strip-nondeterminism dirmngr dwz file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base gfortran-12 gnupg gnupg-l10n gnupg-utils gpg gpg-agent gpg-wks-client gpg-wks-server gpgconf gpgsm groff-base gtk-update-icon-cache hicolor-icon-theme ibverbs-providers intltool-debian java-common java-wrappers javahelper junit4 junit5 libaopalliance-java libapache-pom-java libapiguardian-java libarchive-zip-perl libarchive13 libasm-java libasound2 libasound2-data libassuan0 libatinject-jsr330-api-java libatk1.0-0 libavahi-client3 libavahi-common-data libavahi-common3 libb-hooks-op-check-perl libbatik-java libbrotli1 libbsd0 libbsh-java libbz2-dev libcairo2 libcbor0.8 libcdi-api-java libclass-method-modifiers-perl libclass-xsaccessor-perl libclone-perl libcommons-beanutils-java libcommons-cli-java libcommons-codec-java libcommons-collections3-java libcommons-compress-java libcommons-configuration-java libcommons-digester-java libcommons-io-java libcommons-lang-java libcommons-lang3-java libcommons-logging-java libcommons-parent-java libcommons-text-java libcommons-validator-java libcups2 libcurl4 libcurl4-openssl-dev libcurlpp-dev libcurlpp0 libdatrie1 libdbus-1-3 libdebhelper-perl libdeflate0 libdevel-callchecker-perl libdom4j-java libdoxia-core-java libdoxia-java libdoxia-sitetools-java libdrm-amdgpu1 libdrm-common libdrm-nouveau2 libdrm-radeon1 libdrm2 libdynaloader-functions-perl libedit2 libel-api-java libelf1 libencode-locale-perl liberror-prone-java libevent-2.1-7 libevent-core-2.1-7 libevent-dev libevent-extra-2.1-7 libevent-openssl-2.1-7 libevent-pthreads-2.1-7 libfabric1 libfido2-1 libfile-dirlist-perl libfile-homedir-perl libfile-listing-perl libfile-stripnondeterminism-perl libfile-touch-perl libfile-which-perl libfmt-dev libfmt9 libfontbox2-java libfontconfig1 libfop-java libfreetype6 libfribidi0 libgdk-pixbuf-2.0-0 libgdk-pixbuf2.0-common libgeronimo-annotation-1.3-spec-java libgeronimo-interceptor-3.0-spec-java libgfortran-12-dev libgfortran5 libgif7 libgl1 libgl1-mesa-dri libglapi-mesa libglib2.0-0 libglvnd0 libglx-mesa0 libglx0 libgraphite2-3 libgtk2.0-0 libgtk2.0-common libguava-java libguice-java libhamcrest-java libharfbuzz0b libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl libhttp-cookies-perl libhttp-date-perl libhttp-message-perl libhttp-negotiate-perl libhttpclient-java libhttpcore-java libhwloc-dev libhwloc-plugins libhwloc15 libibverbs-dev libibverbs1 libicu72 libimport-into-perl libio-html-perl libio-pty-perl libio-socket-ssl-perl libipc-run-perl libitext1-java libjansi-java libjaxen-java libjaxp1.3-java libjbig0 libjcommander-java libjetty9-java libjpeg62-turbo libjs-jquery libjs-jquery-ui libjsoncpp25 libjsoup-java libjsp-api-java libjsr305-java libjtidy-java libksba8 liblcms2-2 libldap-2.5-0 liblerc4 libllvm15 libltdl-dev libltdl7 liblwp-mediatypes-perl liblwp-protocol-https-perl liblzma-dev libmagic-mgc libmagic1 libmaven-archiver-java libmaven-clean-plugin-java libmaven-common-artifact-filters-java libmaven-compiler-plugin-java libmaven-file-management-java libmaven-filtering-java libmaven-jar-plugin-java libmaven-parent-java libmaven-plugin-tools-java libmaven-reporting-api-java libmaven-reporting-exec-java libmaven-reporting-impl-java libmaven-resolver-java libmaven-resources-plugin-java libmaven-shared-incremental-java libmaven-shared-io-java libmaven-shared-utils-java libmaven-site-plugin-java libmaven3-core-java libmd0 libmodule-runtime-perl libmoo-perl libmunge2 libmuparserx-dev libmuparserx4.0.11 libncursesw6 libnet-http-perl libnet-ssleay-perl libnghttp2-14 libnl-3-200 libnl-3-dev libnl-route-3-200 libnl-route-3-dev libnpth0 libnspr4 libnss3 libnuma-dev libnuma1 libopenmpi-dev libopenmpi3 libopentest4j-java libopentest4j-reporting-java liboro-java libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libparams-classify-perl libpciaccess0 libpcsclite1 libpicocli-java libpipeline1 libpixman-1-0 libplexus-ant-factory-java libplexus-archiver-java libplexus-bsh-factory-java libplexus-build-api-java libplexus-cipher-java libplexus-classworlds-java libplexus-compiler-java libplexus-component-annotations-java libplexus-container-default-java libplexus-container-default1.5-java libplexus-i18n-java libplexus-interpolation-java libplexus-io-java libplexus-languages-java libplexus-sec-dispatcher-java libplexus-utils2-java libplexus-velocity-java libpmix-dev libpmix2 libpng16-16 libproc2-0 libprotobuf-dev libprotobuf-lite32 libprotobuf32 libprotoc32 libpsl5 libpython3-stdlib libpython3.11-stdlib libqdox-java libqdox2-java librdmacm1 libreadline8 libregexp-ipv6-perl librhash0 librole-tiny-perl librtmp1 libsasl2-2 libsasl2-modules-db libsensors-config libsensors5 libservlet-api-java libsisu-inject-java libsisu-plexus-java libslf4j-java libsnappy-java libsnappy-jni libsnappy1v5 libspdlog-dev libspdlog1.10 libsqlite3-0 libssh2-1 libssl-dev libsub-override-perl libsub-quote-perl libsurefire-java libthai-data libthai0 libtiff6 libtimedate-perl libtool libtry-tiny-perl libuchardet0 libucx0 libunivocity-parsers-java liburi-perl libuv1 libvelocity-tools-java libwagon-file-java libwagon-http-shaded-java libwagon-provider-api-java libwebp7 libwebsocket-api-java libwww-perl libwww-robotrules-perl libx11-6 libx11-data libx11-xcb1 libxalan2-java libxau6 libxbean-reflect-java libxcb-dri2-0 libxcb-dri3-0 libxcb-glx0 libxcb-present0 libxcb-randr0 libxcb-render0 libxcb-shm0 libxcb-sync1 libxcb-xfixes0 libxcb1 libxcomposite1 libxcursor1 libxdamage1 libxdmcp6 libxerces2-java libxext6 libxfixes3 libxi6 libxinerama1 libxml-commons-external-java libxml-commons-resolver1.1-java libxml2 libxml2-utils libxmlgraphics-commons-java libxnvctrl0 libxrandr2 libxrender1 libxshmfence1 libxtst6 libxxf86vm1 libxz-java libz3-4 m4 man-db maven maven-debian-helper maven-repo-helper media-types netbase ocl-icd-libopencl1 openjdk-17-jdk openjdk-17-jdk-headless openjdk-17-jre openjdk-17-jre-headless openmpi-bin openmpi-common openssh-client patchutils perl-openssl-defaults pinentry-curses po-debconf procps protobuf-compiler python3 python3.11 rapidjson-dev readline-common sensible-utils sgml-base shared-mime-info testng unzip uuid-dev velocity wdiff x11-common zlib1g-dev 0 upgraded, 403 newly installed, 0 to remove and 0 not upgraded. Need to get 280 MB/454 MB of archives. After this operation, 1074 MB of additional disk space will be used. Get:1 https://repo.pureos.net/pureos landing/main all netbase all 6.4 [12.8 kB] Get:2 https://repo.pureos.net/pureos landing/main all ant all 1.10.13-1 [2161 kB] Get:3 https://repo.pureos.net/pureos landing/main arm64 openjdk-17-jdk-headless arm64 17.0.6+10-1 [219 MB] Get:4 https://repo.pureos.net/pureos landing/main arm64 default-jdk-headless arm64 2:1.17-74 [1108 B] Get:5 https://repo.pureos.net/pureos landing/main arm64 openjdk-17-jdk arm64 17.0.6+10-1 [4590 kB] Get:6 https://repo.pureos.net/pureos landing/main arm64 default-jdk arm64 2:1.17-74 [1068 B] Get:7 https://repo.pureos.net/pureos landing/main all libfile-dirlist-perl all 0.05-3 [7600 B] Get:8 https://repo.pureos.net/pureos landing/main all libfile-which-perl all 1.27-2 [15.1 kB] Get:9 https://repo.pureos.net/pureos landing/main all libfile-homedir-perl all 1.006-2 [42.4 kB] Get:10 https://repo.pureos.net/pureos landing/main all libfile-touch-perl all 0.12-2 [8816 B] Get:11 https://repo.pureos.net/pureos landing/main arm64 libio-pty-perl arm64 1:1.17-1 [34.5 kB] Get:12 https://repo.pureos.net/pureos landing/main all libipc-run-perl all 20220807.0-1 [104 kB] Get:13 https://repo.pureos.net/pureos landing/main all libclass-method-modifiers-perl all 2.14-1 [18.1 kB] Get:14 https://repo.pureos.net/pureos landing/main arm64 libclass-xsaccessor-perl arm64 1.19-4+b1 [35.3 kB] Get:15 https://repo.pureos.net/pureos landing/main all libimport-into-perl all 1.002005-2 [11.3 kB] Get:16 https://repo.pureos.net/pureos landing/main all librole-tiny-perl all 2.002004-1 [21.4 kB] Get:17 https://repo.pureos.net/pureos landing/main all libsub-quote-perl all 2.006008-1 [21.8 kB] Get:18 https://repo.pureos.net/pureos landing/main all libmoo-perl all 2.005005-1 [58.0 kB] Get:19 https://repo.pureos.net/pureos landing/main all libencode-locale-perl all 1.05-3 [12.9 kB] Get:20 https://repo.pureos.net/pureos landing/main all libhttp-date-perl all 6.05-2 [10.5 kB] Get:21 https://repo.pureos.net/pureos landing/main all libfile-listing-perl all 6.15-1 [12.6 kB] Get:22 https://repo.pureos.net/pureos landing/main all libhtml-tree-perl all 5.07-3 [211 kB] Get:23 https://repo.pureos.net/pureos landing/main arm64 libclone-perl arm64 0.46-1 [13.5 kB] Get:24 https://repo.pureos.net/pureos landing/main all libio-html-perl all 1.004-3 [16.2 kB] Get:25 https://repo.pureos.net/pureos landing/main all liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get:26 https://repo.pureos.net/pureos landing/main all libhttp-message-perl all 6.44-1 [81.7 kB] Get:27 https://repo.pureos.net/pureos landing/main all libhttp-cookies-perl all 6.10-1 [19.6 kB] Get:28 https://repo.pureos.net/pureos landing/main all libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get:29 https://repo.pureos.net/pureos landing/main arm64 perl-openssl-defaults arm64 7+b1 [7924 B] Get:30 https://repo.pureos.net/pureos landing/main arm64 libnet-ssleay-perl arm64 1.92-2+b1 [308 kB] Get:31 https://repo.pureos.net/pureos landing/main all libio-socket-ssl-perl all 2.081-2 [219 kB] Get:32 https://repo.pureos.net/pureos landing/main all libnet-http-perl all 6.22-1 [25.3 kB] Get:33 https://repo.pureos.net/pureos landing/main all liblwp-protocol-https-perl all 6.10-1 [12.2 kB] Get:34 https://repo.pureos.net/pureos landing/main all libwww-robotrules-perl all 6.02-1 [12.9 kB] Get:35 https://repo.pureos.net/pureos landing/main all libwww-perl all 6.68-1 [186 kB] Get:36 https://repo.pureos.net/pureos landing/main arm64 patchutils arm64 0.4.2-1 [73.5 kB] Get:37 https://repo.pureos.net/pureos landing/main arm64 wdiff arm64 1.2.2-5 [119 kB] Get:38 https://repo.pureos.net/pureos landing/main arm64 devscripts arm64 2.23.4 [1073 kB] Get:39 https://repo.pureos.net/pureos landing/main all java-wrappers all 0.4 [8916 B] Get:40 https://repo.pureos.net/pureos landing/main all javahelper all 0.78 [97.2 kB] Get:41 https://repo.pureos.net/pureos landing/main all libapiguardian-java all 1.1.2-1 [4656 B] Get:42 https://repo.pureos.net/pureos landing/main all libopentest4j-java all 1.2.0-4 [9516 B] Get:43 https://repo.pureos.net/pureos landing/main all libopentest4j-reporting-java all 0.1.0-M1-2 [49.0 kB] Get:44 https://repo.pureos.net/pureos landing/main all libpicocli-java all 4.6.2-2 [390 kB] Get:45 https://repo.pureos.net/pureos landing/main all libunivocity-parsers-java all 2.9.1-1 [397 kB] Get:46 https://repo.pureos.net/pureos landing/main all junit5 all 5.9.2-1 [2398 kB] Get:47 https://repo.pureos.net/pureos landing/main all libaopalliance-java all 20070526-7 [8572 B] Get:48 https://repo.pureos.net/pureos landing/main all libatinject-jsr330-api-java all 1.0+ds1-5 [5312 B] Get:49 https://repo.pureos.net/pureos landing/main all libjaxp1.3-java all 1.3.05-6 [227 kB] Get:50 https://repo.pureos.net/pureos landing/main all libxml-commons-external-java all 1.4.01-5 [240 kB] Get:51 https://repo.pureos.net/pureos landing/main all libcommons-io-java all 2.11.0-2 [319 kB] Get:52 https://repo.pureos.net/pureos landing/main all libxmlgraphics-commons-java all 2.8-2 [623 kB] Get:53 https://repo.pureos.net/pureos landing/main all libbatik-java all 1.16+dfsg-1 [3908 kB] Get:54 https://repo.pureos.net/pureos landing/main all libbsh-java all 2.0b4-20 [291 kB] Get:55 https://repo.pureos.net/pureos landing/main all libgeronimo-interceptor-3.0-spec-java all 1.0.1-4 [8484 B] Get:56 https://repo.pureos.net/pureos landing/main all libcdi-api-java all 1.2-3 [54.3 kB] Get:57 https://repo.pureos.net/pureos landing/main all libcommons-collections3-java all 3.2.2-2 [526 kB] Get:58 https://repo.pureos.net/pureos landing/main all libcommons-beanutils-java all 1.9.4-1 [232 kB] Get:59 https://repo.pureos.net/pureos landing/main all libcommons-codec-java all 1.15-1 [292 kB] Get:60 https://repo.pureos.net/pureos landing/main all libcommons-compress-java all 1.22-1 [615 kB] Get:61 https://repo.pureos.net/pureos landing/main all libcommons-configuration-java all 1.10-6 [347 kB] Get:62 https://repo.pureos.net/pureos landing/main all libcommons-digester-java all 1.8.1-5 [168 kB] Get:63 https://repo.pureos.net/pureos landing/main all libcommons-lang3-java all 3.12.0-2 [561 kB] Get:64 https://repo.pureos.net/pureos landing/main all libplexus-utils2-java all 3.4.2-1 [258 kB] Get:65 https://repo.pureos.net/pureos landing/main all libplexus-io-java all 3.3.1-2 [65.3 kB] Get:66 https://repo.pureos.net/pureos landing/main all libslf4j-java all 1.7.32-1 [144 kB] Get:67 https://repo.pureos.net/pureos landing/main arm64 libsnappy-jni arm64 1.1.8.3-1 [7056 B] Get:68 https://repo.pureos.net/pureos landing/main all libsnappy-java all 1.1.8.3-1 [98.9 kB] Get:69 https://repo.pureos.net/pureos landing/main all libxz-java all 1.9-1 [143 kB] Get:70 https://repo.pureos.net/pureos landing/main all libplexus-archiver-java all 4.6.1-1 [187 kB] Get:71 https://repo.pureos.net/pureos landing/main all libplexus-interpolation-java all 1.26-1 [76.8 kB] Get:72 https://repo.pureos.net/pureos landing/main all libmaven-archiver-java all 3.6.0-1 [25.1 kB] Get:73 https://repo.pureos.net/pureos landing/main all libmaven-shared-utils-java all 3.3.4-1 [138 kB] Get:74 https://repo.pureos.net/pureos landing/main all libgeronimo-annotation-1.3-spec-java all 1.3-1 [11.1 kB] Get:75 https://repo.pureos.net/pureos landing/main all liberror-prone-java all 2.18.0-1 [22.5 kB] Get:76 https://repo.pureos.net/pureos landing/main all libjsr305-java all 0.1~+svn49-11 [26.9 kB] Get:77 https://repo.pureos.net/pureos landing/main all libguava-java all 31.1-1 [2613 kB] Get:78 https://repo.pureos.net/pureos landing/main all libguice-java all 4.2.3-2 [1435 kB] Get:79 https://repo.pureos.net/pureos landing/main all libmaven-parent-java all 35-1 [6140 B] Get:80 https://repo.pureos.net/pureos landing/main all libwagon-provider-api-java all 3.5.3-1 [48.2 kB] Get:81 https://repo.pureos.net/pureos landing/main all libmaven-resolver-java all 1.6.3-1 [548 kB] Get:82 https://repo.pureos.net/pureos landing/main all libplexus-cipher-java all 2.0-1 [14.9 kB] Get:83 https://repo.pureos.net/pureos landing/main all libplexus-classworlds-java all 2.7.0-1 [50.6 kB] Get:84 https://repo.pureos.net/pureos landing/main all libplexus-component-annotations-java all 2.1.1-1 [7660 B] Get:85 https://repo.pureos.net/pureos landing/main all libplexus-sec-dispatcher-java all 2.0-3 [28.3 kB] Get:86 https://repo.pureos.net/pureos landing/main all libsisu-inject-java all 0.3.4-2 [347 kB] Get:87 https://repo.pureos.net/pureos landing/main all libsisu-plexus-java all 0.3.4-3 [181 kB] Get:88 https://repo.pureos.net/pureos landing/main all libmaven3-core-java all 3.8.7-1 [1572 kB] Get:89 https://repo.pureos.net/pureos landing/main all libmaven-shared-io-java all 3.0.0-4 [33.2 kB] Get:90 https://repo.pureos.net/pureos landing/main all libmaven-file-management-java all 3.0.0-1 [35.1 kB] Get:91 https://repo.pureos.net/pureos landing/main all libmaven-jar-plugin-java all 3.3.0-2 [24.0 kB] Get:92 https://repo.pureos.net/pureos landing/main all libcommons-text-java all 1.10.0-1 [211 kB] Get:93 https://repo.pureos.net/pureos landing/main all libcommons-validator-java all 1:1.7-1 [181 kB] Get:94 https://repo.pureos.net/pureos landing/main arm64 libcurlpp0 arm64 0.8.1-5.1 [25.2 kB] Get:95 https://repo.pureos.net/pureos landing/main arm64 libcurlpp-dev arm64 0.8.1-5.1 [57.7 kB] Get:96 https://repo.pureos.net/pureos landing/main all libjaxen-java all 1.1.6-4 [214 kB] Get:97 https://repo.pureos.net/pureos landing/main all libdom4j-java all 2.1.3-2 [310 kB] Get:98 https://repo.pureos.net/pureos landing/main all libhttpcore-java all 4.4.16-1 [636 kB] Get:99 https://repo.pureos.net/pureos landing/main all libhttpclient-java all 4.5.14-1 [1247 kB] Get:100 https://repo.pureos.net/pureos landing/main all libdoxia-core-java all 1.12.0-1 [213 kB] Get:101 https://repo.pureos.net/pureos landing/main all libfontbox2-java all 2.0.27-2 [1510 kB] Get:102 https://repo.pureos.net/pureos landing/main all libfop-java all 1:2.8-2 [10.1 MB] Get:103 https://repo.pureos.net/pureos landing/main all libitext1-java all 1.4-7 [1257 kB] Get:104 https://repo.pureos.net/pureos landing/main all libxbean-reflect-java all 4.5-8 [133 kB] Get:105 https://repo.pureos.net/pureos landing/main all libplexus-container-default-java all 2.1.1-1 [193 kB] Get:106 https://repo.pureos.net/pureos landing/main all libdoxia-java all 1.12.0-1 [459 kB] Get:107 https://repo.pureos.net/pureos landing/main all libmaven-reporting-api-java all 3.1.1-1 [7240 B] Get:108 https://repo.pureos.net/pureos landing/main all libplexus-i18n-java all 1.0-beta-10-6 [13.4 kB] Get:109 https://repo.pureos.net/pureos landing/main all velocity all 1.7-6 [429 kB] Get:110 https://repo.pureos.net/pureos landing/main all libplexus-velocity-java all 1.2-3.1 [10.5 kB] Get:111 https://repo.pureos.net/pureos landing/main all liboro-java all 2.0.8a-14 [70.5 kB] Get:112 https://repo.pureos.net/pureos landing/main all libvelocity-tools-java all 2.0-8 [308 kB] Get:113 https://repo.pureos.net/pureos landing/main all libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get:114 https://repo.pureos.net/pureos landing/main all libxerces2-java all 2.12.2-1 [1440 kB] Get:115 https://repo.pureos.net/pureos landing/main all libxalan2-java all 2.7.2-4 [3419 kB] Get:116 https://repo.pureos.net/pureos landing/main all libdoxia-sitetools-java all 1.11.1-1 [202 kB] Get:117 https://repo.pureos.net/pureos landing/main all libel-api-java all 3.0.0-3 [64.9 kB] Get:118 https://repo.pureos.net/pureos landing/main all libjcommander-java all 1.71-4 [73.0 kB] Get:119 https://repo.pureos.net/pureos landing/main all libwebsocket-api-java all 1.1-2 [40.1 kB] Get:120 https://repo.pureos.net/pureos landing/main all libjetty9-java all 9.4.50-4 [2962 kB] Get:121 https://repo.pureos.net/pureos landing/main all libjsoup-java all 1.15.3-1 [431 kB] Get:122 https://repo.pureos.net/pureos landing/main all libjtidy-java all 7+svn20110807-5 [250 kB] Get:123 https://repo.pureos.net/pureos landing/main all libmaven-clean-plugin-java all 3.2.0-2 [32.2 kB] Get:124 https://repo.pureos.net/pureos landing/main all libmaven-common-artifact-filters-java all 3.3.2-1 [48.2 kB] Get:125 https://repo.pureos.net/pureos landing/main all libmaven-shared-incremental-java all 1.1-3 [9524 B] Get:126 https://repo.pureos.net/pureos landing/main all libplexus-compiler-java all 2.12.1-1 [99.8 kB] Get:127 https://repo.pureos.net/pureos landing/main all libqdox2-java all 2.0.3-1 [296 kB] Get:128 https://repo.pureos.net/pureos landing/main all libplexus-languages-java all 1.1.1-2 [47.3 kB] Get:129 https://repo.pureos.net/pureos landing/main all libmaven-compiler-plugin-java all 3.10.1-2 [59.0 kB] Get:130 https://repo.pureos.net/pureos landing/main all libplexus-build-api-java all 0.0.7-4 [10.3 kB] Get:131 https://repo.pureos.net/pureos landing/main all libmaven-filtering-java all 3.3.0-1 [50.2 kB] Get:132 https://repo.pureos.net/pureos landing/main all libmaven-reporting-impl-java all 3.2.0-2 [15.2 kB] Get:133 https://repo.pureos.net/pureos landing/main all libplexus-container-default1.5-java all 2.1.1-1 [4476 B] Get:134 https://repo.pureos.net/pureos landing/main all libplexus-ant-factory-java all 1.0~alpha2.1-4 [11.4 kB] Get:135 https://repo.pureos.net/pureos landing/main all libplexus-bsh-factory-java all 1.0~alpha7-5 [8360 B] Get:136 https://repo.pureos.net/pureos landing/main all libmaven-plugin-tools-java all 3.7.1-1 [265 kB] Get:137 https://repo.pureos.net/pureos landing/main all libmaven-reporting-exec-java all 1.6.0-1 [26.8 kB] Get:138 https://repo.pureos.net/pureos landing/main all libmaven-resources-plugin-java all 3.3.0-1 [28.4 kB] Get:139 https://repo.pureos.net/pureos landing/main all libmaven-site-plugin-java all 3.12.1-2 [107 kB] Get:140 https://repo.pureos.net/pureos landing/main arm64 libmuparserx4.0.11 arm64 4.0.11-2 [167 kB] Get:141 https://repo.pureos.net/pureos landing/main arm64 libmuparserx-dev arm64 4.0.11-2 [38.5 kB] Get:142 https://repo.pureos.net/pureos landing/main all libsurefire-java all 2.22.3-2 [1169 kB] Get:143 https://repo.pureos.net/pureos landing/main all libwagon-file-java all 3.5.3-1 [8388 B] Get:144 https://repo.pureos.net/pureos landing/main all libwagon-http-shaded-java all 3.5.3-1 [1341 kB] Get:145 https://repo.pureos.net/pureos landing/main all maven all 3.8.7-1 [18.9 kB] Get:146 https://repo.pureos.net/pureos landing/main all maven-repo-helper all 1.11 [142 kB] Get:147 https://repo.pureos.net/pureos landing/main all maven-debian-helper all 2.6.3 [108 kB] Get:148 https://repo.pureos.net/pureos landing/main all testng all 6.9.12-4 [795 kB] Fetched 280 MB in 23s (11.9 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package media-types. (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 ... 13167 files and directories currently installed.) Preparing to unpack .../000-media-types_10.0.0_all.deb ... Unpacking media-types (10.0.0) ... Selecting previously unselected package libncursesw6:arm64. Preparing to unpack .../001-libncursesw6_6.4-4_arm64.deb ... Unpacking libncursesw6:arm64 (6.4-4) ... Selecting previously unselected package readline-common. Preparing to unpack .../002-readline-common_8.2-1.3_all.deb ... Unpacking readline-common (8.2-1.3) ... Selecting previously unselected package libreadline8:arm64. Preparing to unpack .../003-libreadline8_8.2-1.3_arm64.deb ... Unpacking libreadline8:arm64 (8.2-1.3) ... Selecting previously unselected package libsqlite3-0:arm64. Preparing to unpack .../004-libsqlite3-0_3.40.1-2_arm64.deb ... Unpacking libsqlite3-0:arm64 (3.40.1-2) ... Selecting previously unselected package libpython3.11-stdlib:arm64. Preparing to unpack .../005-libpython3.11-stdlib_3.11.2-6_arm64.deb ... Unpacking libpython3.11-stdlib:arm64 (3.11.2-6) ... Selecting previously unselected package python3.11. Preparing to unpack .../006-python3.11_3.11.2-6_arm64.deb ... Unpacking python3.11 (3.11.2-6) ... Selecting previously unselected package libpython3-stdlib:arm64. Preparing to unpack .../007-libpython3-stdlib_3.11.2-1+b1_arm64.deb ... Unpacking libpython3-stdlib:arm64 (3.11.2-1+b1) ... Selecting previously unselected package python3. Preparing to unpack .../008-python3_3.11.2-1+b1_arm64.deb ... Unpacking python3 (3.11.2-1+b1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../009-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package netbase. Preparing to unpack .../010-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package libproc2-0:arm64. Preparing to unpack .../011-libproc2-0_2%3a4.0.2-3_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.2-3) ... Selecting previously unselected package procps. Preparing to unpack .../012-procps_2%3a4.0.2-3_arm64.deb ... Unpacking procps (2:4.0.2-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../013-sensible-utils_0.0.17+nmu1_all.deb ... Unpacking sensible-utils (0.0.17+nmu1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../014-libmagic-mgc_1%3a5.44-3_arm64.deb ... Unpacking libmagic-mgc (1:5.44-3) ... Selecting previously unselected package libmagic1:arm64. Preparing to unpack .../015-libmagic1_1%3a5.44-3_arm64.deb ... Unpacking libmagic1:arm64 (1:5.44-3) ... Selecting previously unselected package file. Preparing to unpack .../016-file_1%3a5.44-3_arm64.deb ... Unpacking file (1:5.44-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../017-gettext-base_0.21-12_arm64.deb ... Unpacking gettext-base (0.21-12) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../018-libuchardet0_0.0.7-1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../019-groff-base_1.22.4-10_arm64.deb ... Unpacking groff-base (1.22.4-10) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../020-bsdextrautils_2.38.1-5pureos1_arm64.deb ... Unpacking bsdextrautils (2.38.1-5pureos1) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../021-libpipeline1_1.5.7-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.7-1) ... Selecting previously unselected package man-db. Preparing to unpack .../022-man-db_2.11.2-2_arm64.deb ... Unpacking man-db (2.11.2-2) ... Selecting previously unselected package libmd0:arm64. Preparing to unpack .../023-libmd0_1.0.4-2_arm64.deb ... Unpacking libmd0:arm64 (1.0.4-2) ... Selecting previously unselected package libbsd0:arm64. Preparing to unpack .../024-libbsd0_0.11.7-2_arm64.deb ... Unpacking libbsd0:arm64 (0.11.7-2) ... Selecting previously unselected package libedit2:arm64. Preparing to unpack .../025-libedit2_3.1-20221030-2_arm64.deb ... Unpacking libedit2:arm64 (3.1-20221030-2) ... Selecting previously unselected package libcbor0.8:arm64. Preparing to unpack .../026-libcbor0.8_0.8.0-2+b1_arm64.deb ... Unpacking libcbor0.8:arm64 (0.8.0-2+b1) ... Selecting previously unselected package libfido2-1:arm64. Preparing to unpack .../027-libfido2-1_1.12.0-2+b1_arm64.deb ... Unpacking libfido2-1:arm64 (1.12.0-2+b1) ... Selecting previously unselected package openssh-client. Preparing to unpack .../028-openssh-client_1%3a9.2p1-2_arm64.deb ... Unpacking openssh-client (1:9.2p1-2) ... Selecting previously unselected package hicolor-icon-theme. Preparing to unpack .../029-hicolor-icon-theme_0.17-2_all.deb ... Unpacking hicolor-icon-theme (0.17-2) ... Selecting previously unselected package libgdk-pixbuf2.0-common. Preparing to unpack .../030-libgdk-pixbuf2.0-common_2.42.10+dfsg-1_all.deb ... Unpacking libgdk-pixbuf2.0-common (2.42.10+dfsg-1) ... Selecting previously unselected package libglib2.0-0:arm64. Preparing to unpack .../031-libglib2.0-0_2.74.6-2_arm64.deb ... Unpacking libglib2.0-0:arm64 (2.74.6-2) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../032-libicu72_72.1-3_arm64.deb ... Unpacking libicu72:arm64 (72.1-3) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../033-libxml2_2.9.14+dfsg-1.2_arm64.deb ... Unpacking libxml2:arm64 (2.9.14+dfsg-1.2) ... Selecting previously unselected package shared-mime-info. Preparing to unpack .../034-shared-mime-info_2.2-1_arm64.deb ... Unpacking shared-mime-info (2.2-1) ... Selecting previously unselected package libjpeg62-turbo:arm64. Preparing to unpack .../035-libjpeg62-turbo_1%3a2.1.5-2_arm64.deb ... Unpacking libjpeg62-turbo:arm64 (1:2.1.5-2) ... Selecting previously unselected package libpng16-16:arm64. Preparing to unpack .../036-libpng16-16_1.6.39-2_arm64.deb ... Unpacking libpng16-16:arm64 (1.6.39-2) ... Selecting previously unselected package libdeflate0:arm64. Preparing to unpack .../037-libdeflate0_1.14-1_arm64.deb ... Unpacking libdeflate0:arm64 (1.14-1) ... Selecting previously unselected package libjbig0:arm64. Preparing to unpack .../038-libjbig0_2.1-6.1_arm64.deb ... Unpacking libjbig0:arm64 (2.1-6.1) ... Selecting previously unselected package liblerc4:arm64. Preparing to unpack .../039-liblerc4_4.0.0+ds-2_arm64.deb ... Unpacking liblerc4:arm64 (4.0.0+ds-2) ... Selecting previously unselected package libwebp7:arm64. Preparing to unpack .../040-libwebp7_1.2.4-0.2_arm64.deb ... Unpacking libwebp7:arm64 (1.2.4-0.2) ... Selecting previously unselected package libtiff6:arm64. Preparing to unpack .../041-libtiff6_4.5.0-6_arm64.deb ... Unpacking libtiff6:arm64 (4.5.0-6) ... Selecting previously unselected package libgdk-pixbuf-2.0-0:arm64. Preparing to unpack .../042-libgdk-pixbuf-2.0-0_2.42.10+dfsg-1+b1_arm64.deb ... Unpacking libgdk-pixbuf-2.0-0:arm64 (2.42.10+dfsg-1+b1) ... Selecting previously unselected package gtk-update-icon-cache. Preparing to unpack .../043-gtk-update-icon-cache_3.24.37-2pureos3_arm64.deb ... Unpacking gtk-update-icon-cache (3.24.37-2pureos3) ... Selecting previously unselected package adwaita-icon-theme. Preparing to unpack .../044-adwaita-icon-theme_43-1_all.deb ... Unpacking adwaita-icon-theme (43-1) ... Selecting previously unselected package ca-certificates-java. Preparing to unpack .../045-ca-certificates-java_20230103_all.deb ... Unpacking ca-certificates-java (20230103) ... Selecting previously unselected package java-common. Preparing to unpack .../046-java-common_0.74_all.deb ... Unpacking java-common (0.74) ... Selecting previously unselected package libavahi-common-data:arm64. Preparing to unpack .../047-libavahi-common-data_0.8-10_arm64.deb ... Unpacking libavahi-common-data:arm64 (0.8-10) ... Selecting previously unselected package libavahi-common3:arm64. Preparing to unpack .../048-libavahi-common3_0.8-10_arm64.deb ... Unpacking libavahi-common3:arm64 (0.8-10) ... Selecting previously unselected package libdbus-1-3:arm64. Preparing to unpack .../049-libdbus-1-3_1.14.6-1_arm64.deb ... Unpacking libdbus-1-3:arm64 (1.14.6-1) ... Selecting previously unselected package libavahi-client3:arm64. Preparing to unpack .../050-libavahi-client3_0.8-10_arm64.deb ... Unpacking libavahi-client3:arm64 (0.8-10) ... Selecting previously unselected package libcups2:arm64. Preparing to unpack .../051-libcups2_2.4.2-3_arm64.deb ... Unpacking libcups2:arm64 (2.4.2-3) ... Selecting previously unselected package liblcms2-2:arm64. Preparing to unpack .../052-liblcms2-2_2.14-2_arm64.deb ... Unpacking liblcms2-2:arm64 (2.14-2) ... Selecting previously unselected package libbrotli1:arm64. Preparing to unpack .../053-libbrotli1_1.0.9-2+b6_arm64.deb ... Unpacking libbrotli1:arm64 (1.0.9-2+b6) ... Selecting previously unselected package libfreetype6:arm64. Preparing to unpack .../054-libfreetype6_2.12.1+dfsg-5_arm64.deb ... Unpacking libfreetype6:arm64 (2.12.1+dfsg-5) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../055-fonts-dejavu-core_2.37-6_all.deb ... Unpacking fonts-dejavu-core (2.37-6) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../056-fontconfig-config_2.14.1-4_arm64.deb ... Unpacking fontconfig-config (2.14.1-4) ... Selecting previously unselected package libfontconfig1:arm64. Preparing to unpack .../057-libfontconfig1_2.14.1-4_arm64.deb ... Unpacking libfontconfig1:arm64 (2.14.1-4) ... Selecting previously unselected package libnspr4:arm64. Preparing to unpack .../058-libnspr4_2%3a4.35-1_arm64.deb ... Unpacking libnspr4:arm64 (2:4.35-1) ... Selecting previously unselected package libnss3:arm64. Preparing to unpack .../059-libnss3_2%3a3.87.1-1_arm64.deb ... Unpacking libnss3:arm64 (2:3.87.1-1) ... Selecting previously unselected package libasound2-data. Preparing to unpack .../060-libasound2-data_1.2.8-1_all.deb ... Unpacking libasound2-data (1.2.8-1) ... Selecting previously unselected package libasound2:arm64. Preparing to unpack .../061-libasound2_1.2.8-1+b1_arm64.deb ... Unpacking libasound2:arm64 (1.2.8-1+b1) ... Selecting previously unselected package libgraphite2-3:arm64. Preparing to unpack .../062-libgraphite2-3_1.3.14-1_arm64.deb ... Unpacking libgraphite2-3:arm64 (1.3.14-1) ... Selecting previously unselected package libharfbuzz0b:arm64. Preparing to unpack .../063-libharfbuzz0b_6.0.0+dfsg-3_arm64.deb ... Unpacking libharfbuzz0b:arm64 (6.0.0+dfsg-3) ... Selecting previously unselected package libpcsclite1:arm64. Preparing to unpack .../064-libpcsclite1_1.9.9-2_arm64.deb ... Unpacking libpcsclite1:arm64 (1.9.9-2) ... Selecting previously unselected package openjdk-17-jre-headless:arm64. Preparing to unpack .../065-openjdk-17-jre-headless_17.0.6+10-1_arm64.deb ... Unpacking openjdk-17-jre-headless:arm64 (17.0.6+10-1) ... Selecting previously unselected package default-jre-headless. Preparing to unpack .../066-default-jre-headless_2%3a1.17-74_arm64.deb ... Unpacking default-jre-headless (2:1.17-74) ... Selecting previously unselected package ant. Preparing to unpack .../067-ant_1.10.13-1_all.deb ... Unpacking ant (1.10.13-1) ... Selecting previously unselected package at-spi2-common. Preparing to unpack .../068-at-spi2-common_2.46.0-5_all.deb ... Unpacking at-spi2-common (2.46.0-5) ... Selecting previously unselected package m4. Preparing to unpack .../069-m4_1.4.19-3_arm64.deb ... Unpacking m4 (1.4.19-3) ... Selecting previously unselected package autoconf. Preparing to unpack .../070-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../071-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../072-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../073-autopoint_0.21-12_all.deb ... Unpacking autopoint (0.21-12) ... Selecting previously unselected package catch2. Preparing to unpack .../074-catch2_2.13.10-1_arm64.deb ... Unpacking catch2 (2.13.10-1) ... Selecting previously unselected package chrpath. Preparing to unpack .../075-chrpath_0.16-2+b1_arm64.deb ... Unpacking chrpath (0.16-2+b1) ... Selecting previously unselected package libarchive13:arm64. Preparing to unpack .../076-libarchive13_3.6.2-1_arm64.deb ... Unpacking libarchive13:arm64 (3.6.2-1) ... Selecting previously unselected package libsasl2-modules-db:arm64. Preparing to unpack .../077-libsasl2-modules-db_2.1.28+dfsg-10_arm64.deb ... Unpacking libsasl2-modules-db:arm64 (2.1.28+dfsg-10) ... Selecting previously unselected package libsasl2-2:arm64. Preparing to unpack .../078-libsasl2-2_2.1.28+dfsg-10_arm64.deb ... Unpacking libsasl2-2:arm64 (2.1.28+dfsg-10) ... Selecting previously unselected package libldap-2.5-0:arm64. Preparing to unpack .../079-libldap-2.5-0_2.5.13+dfsg-5_arm64.deb ... Unpacking libldap-2.5-0:arm64 (2.5.13+dfsg-5) ... Selecting previously unselected package libnghttp2-14:arm64. Preparing to unpack .../080-libnghttp2-14_1.52.0-1_arm64.deb ... Unpacking libnghttp2-14:arm64 (1.52.0-1) ... Selecting previously unselected package libpsl5:arm64. Preparing to unpack .../081-libpsl5_0.21.2-1_arm64.deb ... Unpacking libpsl5:arm64 (0.21.2-1) ... Selecting previously unselected package librtmp1:arm64. Preparing to unpack .../082-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_arm64.deb ... Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:arm64. Preparing to unpack .../083-libssh2-1_1.10.0-3+b1_arm64.deb ... Unpacking libssh2-1:arm64 (1.10.0-3+b1) ... Selecting previously unselected package libcurl4:arm64. Preparing to unpack .../084-libcurl4_7.88.1-10_arm64.deb ... Unpacking libcurl4:arm64 (7.88.1-10) ... Selecting previously unselected package libjsoncpp25:arm64. Preparing to unpack .../085-libjsoncpp25_1.9.5-4_arm64.deb ... Unpacking libjsoncpp25:arm64 (1.9.5-4) ... Selecting previously unselected package librhash0:arm64. Preparing to unpack .../086-librhash0_1.4.3-3_arm64.deb ... Unpacking librhash0:arm64 (1.4.3-3) ... Selecting previously unselected package libuv1:arm64. Preparing to unpack .../087-libuv1_1.44.2-1_arm64.deb ... Unpacking libuv1:arm64 (1.44.2-1) ... Selecting previously unselected package cmake-data. Preparing to unpack .../088-cmake-data_3.25.1-1_all.deb ... Unpacking cmake-data (3.25.1-1) ... Selecting previously unselected package cmake. Preparing to unpack .../089-cmake_3.25.1-1_arm64.deb ... Unpacking cmake (3.25.1-1) ... Selecting previously unselected package dctrl-tools. Preparing to unpack .../090-dctrl-tools_2.24-3_arm64.deb ... Unpacking dctrl-tools (2.24-3) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../091-libdebhelper-perl_13.11.4_all.deb ... Unpacking libdebhelper-perl (13.11.4) ... Selecting previously unselected package libtool. Preparing to unpack .../092-libtool_2.4.7-5_all.deb ... Unpacking libtool (2.4.7-5) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../093-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../094-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../095-libsub-override-perl_0.09-4_all.deb ... Unpacking libsub-override-perl (0.09-4) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../096-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../097-dh-strip-nondeterminism_1.13.1-1_all.deb ... Unpacking dh-strip-nondeterminism (1.13.1-1) ... Selecting previously unselected package libelf1:arm64. Preparing to unpack .../098-libelf1_0.188-2.1_arm64.deb ... Unpacking libelf1:arm64 (0.188-2.1) ... Selecting previously unselected package dwz. Preparing to unpack .../099-dwz_0.15-1_arm64.deb ... Unpacking dwz (0.15-1) ... Selecting previously unselected package gettext. Preparing to unpack .../100-gettext_0.21-12_arm64.deb ... Unpacking gettext (0.21-12) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../101-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../102-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../103-debhelper_13.11.4_all.deb ... Unpacking debhelper (13.11.4) ... Selecting previously unselected package libgtk2.0-common. Preparing to unpack .../104-libgtk2.0-common_2.24.33-2_all.deb ... Unpacking libgtk2.0-common (2.24.33-2) ... Selecting previously unselected package libatk1.0-0:arm64. Preparing to unpack .../105-libatk1.0-0_2.46.0-5_arm64.deb ... Unpacking libatk1.0-0:arm64 (2.46.0-5) ... Selecting previously unselected package libpixman-1-0:arm64. Preparing to unpack .../106-libpixman-1-0_0.42.2-1_arm64.deb ... Unpacking libpixman-1-0:arm64 (0.42.2-1) ... Selecting previously unselected package libxau6:arm64. Preparing to unpack .../107-libxau6_1%3a1.0.9-1_arm64.deb ... Unpacking libxau6:arm64 (1:1.0.9-1) ... Selecting previously unselected package libxdmcp6:arm64. Preparing to unpack .../108-libxdmcp6_1%3a1.1.2-3_arm64.deb ... Unpacking libxdmcp6:arm64 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:arm64. Preparing to unpack .../109-libxcb1_1.15-1_arm64.deb ... Unpacking libxcb1:arm64 (1.15-1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../110-libx11-data_2%3a1.8.4-2_all.deb ... Unpacking libx11-data (2:1.8.4-2) ... Selecting previously unselected package libx11-6:arm64. Preparing to unpack .../111-libx11-6_2%3a1.8.4-2_arm64.deb ... Unpacking libx11-6:arm64 (2:1.8.4-2) ... Selecting previously unselected package libxcb-render0:arm64. Preparing to unpack .../112-libxcb-render0_1.15-1_arm64.deb ... Unpacking libxcb-render0:arm64 (1.15-1) ... Selecting previously unselected package libxcb-shm0:arm64. Preparing to unpack .../113-libxcb-shm0_1.15-1_arm64.deb ... Unpacking libxcb-shm0:arm64 (1.15-1) ... Selecting previously unselected package libxext6:arm64. Preparing to unpack .../114-libxext6_2%3a1.3.4-1+b1_arm64.deb ... Unpacking libxext6:arm64 (2:1.3.4-1+b1) ... Selecting previously unselected package libxrender1:arm64. Preparing to unpack .../115-libxrender1_1%3a0.9.10-1.1_arm64.deb ... Unpacking libxrender1:arm64 (1:0.9.10-1.1) ... Selecting previously unselected package libcairo2:arm64. Preparing to unpack .../116-libcairo2_1.16.0-7_arm64.deb ... Unpacking libcairo2:arm64 (1.16.0-7) ... Selecting previously unselected package fontconfig. Preparing to unpack .../117-fontconfig_2.14.1-4_arm64.deb ... Unpacking fontconfig (2.14.1-4) ... Selecting previously unselected package libfribidi0:arm64. Preparing to unpack .../118-libfribidi0_1.0.8-2.1_arm64.deb ... Unpacking libfribidi0:arm64 (1.0.8-2.1) ... Selecting previously unselected package libthai-data. Preparing to unpack .../119-libthai-data_0.1.29-1_all.deb ... Unpacking libthai-data (0.1.29-1) ... Selecting previously unselected package libdatrie1:arm64. Preparing to unpack .../120-libdatrie1_0.2.13-2+b1_arm64.deb ... Unpacking libdatrie1:arm64 (0.2.13-2+b1) ... Selecting previously unselected package libthai0:arm64. Preparing to unpack .../121-libthai0_0.1.29-1_arm64.deb ... Unpacking libthai0:arm64 (0.1.29-1) ... Selecting previously unselected package libpango-1.0-0:arm64. Preparing to unpack .../122-libpango-1.0-0_1.50.12+ds-1_arm64.deb ... Unpacking libpango-1.0-0:arm64 (1.50.12+ds-1) ... Selecting previously unselected package libpangoft2-1.0-0:arm64. Preparing to unpack .../123-libpangoft2-1.0-0_1.50.12+ds-1_arm64.deb ... Unpacking libpangoft2-1.0-0:arm64 (1.50.12+ds-1) ... Selecting previously unselected package libpangocairo-1.0-0:arm64. Preparing to unpack .../124-libpangocairo-1.0-0_1.50.12+ds-1_arm64.deb ... Unpacking libpangocairo-1.0-0:arm64 (1.50.12+ds-1) ... Selecting previously unselected package libxcomposite1:arm64. Preparing to unpack .../125-libxcomposite1_1%3a0.4.5-1_arm64.deb ... Unpacking libxcomposite1:arm64 (1:0.4.5-1) ... Selecting previously unselected package libxfixes3:arm64. Preparing to unpack .../126-libxfixes3_1%3a6.0.0-2_arm64.deb ... Unpacking libxfixes3:arm64 (1:6.0.0-2) ... Selecting previously unselected package libxcursor1:arm64. Preparing to unpack .../127-libxcursor1_1%3a1.2.1-1_arm64.deb ... Unpacking libxcursor1:arm64 (1:1.2.1-1) ... Selecting previously unselected package libxdamage1:arm64. Preparing to unpack .../128-libxdamage1_1%3a1.1.6-1_arm64.deb ... Unpacking libxdamage1:arm64 (1:1.1.6-1) ... Selecting previously unselected package libxi6:arm64. Preparing to unpack .../129-libxi6_2%3a1.8-1+b1_arm64.deb ... Unpacking libxi6:arm64 (2:1.8-1+b1) ... Selecting previously unselected package libxinerama1:arm64. Preparing to unpack .../130-libxinerama1_2%3a1.1.4-3_arm64.deb ... Unpacking libxinerama1:arm64 (2:1.1.4-3) ... Selecting previously unselected package libxrandr2:arm64. Preparing to unpack .../131-libxrandr2_2%3a1.5.2-2+b1_arm64.deb ... Unpacking libxrandr2:arm64 (2:1.5.2-2+b1) ... Selecting previously unselected package libgtk2.0-0:arm64. Preparing to unpack .../132-libgtk2.0-0_2.24.33-2_arm64.deb ... Unpacking libgtk2.0-0:arm64 (2.24.33-2) ... Selecting previously unselected package libglvnd0:arm64. Preparing to unpack .../133-libglvnd0_1.6.0-1_arm64.deb ... Unpacking libglvnd0:arm64 (1.6.0-1) ... Selecting previously unselected package libdrm-common. Preparing to unpack .../134-libdrm-common_2.4.114-1_all.deb ... Unpacking libdrm-common (2.4.114-1) ... Selecting previously unselected package libdrm2:arm64. Preparing to unpack .../135-libdrm2_2.4.114-1+b1_arm64.deb ... Unpacking libdrm2:arm64 (2.4.114-1+b1) ... Selecting previously unselected package libglapi-mesa:arm64. Preparing to unpack .../136-libglapi-mesa_22.3.6-1+deb12u1_arm64.deb ... Unpacking libglapi-mesa:arm64 (22.3.6-1+deb12u1) ... Selecting previously unselected package libx11-xcb1:arm64. Preparing to unpack .../137-libx11-xcb1_2%3a1.8.4-2_arm64.deb ... Unpacking libx11-xcb1:arm64 (2:1.8.4-2) ... Selecting previously unselected package libxcb-dri2-0:arm64. Preparing to unpack .../138-libxcb-dri2-0_1.15-1_arm64.deb ... Unpacking libxcb-dri2-0:arm64 (1.15-1) ... Selecting previously unselected package libxcb-dri3-0:arm64. Preparing to unpack .../139-libxcb-dri3-0_1.15-1_arm64.deb ... Unpacking libxcb-dri3-0:arm64 (1.15-1) ... Selecting previously unselected package libxcb-glx0:arm64. Preparing to unpack .../140-libxcb-glx0_1.15-1_arm64.deb ... Unpacking libxcb-glx0:arm64 (1.15-1) ... Selecting previously unselected package libxcb-present0:arm64. Preparing to unpack .../141-libxcb-present0_1.15-1_arm64.deb ... Unpacking libxcb-present0:arm64 (1.15-1) ... Selecting previously unselected package libxcb-randr0:arm64. Preparing to unpack .../142-libxcb-randr0_1.15-1_arm64.deb ... Unpacking libxcb-randr0:arm64 (1.15-1) ... Selecting previously unselected package libxcb-sync1:arm64. Preparing to unpack .../143-libxcb-sync1_1.15-1_arm64.deb ... Unpacking libxcb-sync1:arm64 (1.15-1) ... Selecting previously unselected package libxcb-xfixes0:arm64. Preparing to unpack .../144-libxcb-xfixes0_1.15-1_arm64.deb ... Unpacking libxcb-xfixes0:arm64 (1.15-1) ... Selecting previously unselected package libxshmfence1:arm64. Preparing to unpack .../145-libxshmfence1_1.3-1_arm64.deb ... Unpacking libxshmfence1:arm64 (1.3-1) ... Selecting previously unselected package libxxf86vm1:arm64. Preparing to unpack .../146-libxxf86vm1_1%3a1.1.4-1+b2_arm64.deb ... Unpacking libxxf86vm1:arm64 (1:1.1.4-1+b2) ... Selecting previously unselected package libdrm-amdgpu1:arm64. Preparing to unpack .../147-libdrm-amdgpu1_2.4.114-1+b1_arm64.deb ... Unpacking libdrm-amdgpu1:arm64 (2.4.114-1+b1) ... Selecting previously unselected package libdrm-nouveau2:arm64. Preparing to unpack .../148-libdrm-nouveau2_2.4.114-1+b1_arm64.deb ... Unpacking libdrm-nouveau2:arm64 (2.4.114-1+b1) ... Selecting previously unselected package libdrm-radeon1:arm64. Preparing to unpack .../149-libdrm-radeon1_2.4.114-1+b1_arm64.deb ... Unpacking libdrm-radeon1:arm64 (2.4.114-1+b1) ... Selecting previously unselected package libz3-4:arm64. Preparing to unpack .../150-libz3-4_4.8.12-3.1_arm64.deb ... Unpacking libz3-4:arm64 (4.8.12-3.1) ... Selecting previously unselected package libllvm15:arm64. Preparing to unpack .../151-libllvm15_1%3a15.0.6-4+b1_arm64.deb ... Unpacking libllvm15:arm64 (1:15.0.6-4+b1) ... Selecting previously unselected package libsensors-config. Preparing to unpack .../152-libsensors-config_1%3a3.6.0-7.1_all.deb ... Unpacking libsensors-config (1:3.6.0-7.1) ... Selecting previously unselected package libsensors5:arm64. Preparing to unpack .../153-libsensors5_1%3a3.6.0-7.1_arm64.deb ... Unpacking libsensors5:arm64 (1:3.6.0-7.1) ... Selecting previously unselected package libgl1-mesa-dri:arm64. Preparing to unpack .../154-libgl1-mesa-dri_22.3.6-1+deb12u1_arm64.deb ... Unpacking libgl1-mesa-dri:arm64 (22.3.6-1+deb12u1) ... Selecting previously unselected package libglx-mesa0:arm64. Preparing to unpack .../155-libglx-mesa0_22.3.6-1+deb12u1_arm64.deb ... Unpacking libglx-mesa0:arm64 (22.3.6-1+deb12u1) ... Selecting previously unselected package libglx0:arm64. Preparing to unpack .../156-libglx0_1.6.0-1_arm64.deb ... Unpacking libglx0:arm64 (1.6.0-1) ... Selecting previously unselected package libgl1:arm64. Preparing to unpack .../157-libgl1_1.6.0-1_arm64.deb ... Unpacking libgl1:arm64 (1.6.0-1) ... Selecting previously unselected package libgif7:arm64. Preparing to unpack .../158-libgif7_5.2.1-2.5_arm64.deb ... Unpacking libgif7:arm64 (5.2.1-2.5) ... Selecting previously unselected package x11-common. Preparing to unpack .../159-x11-common_1%3a7.7+23_all.deb ... Unpacking x11-common (1:7.7+23) ... Selecting previously unselected package libxtst6:arm64. Preparing to unpack .../160-libxtst6_2%3a1.2.3-1.1_arm64.deb ... Unpacking libxtst6:arm64 (2:1.2.3-1.1) ... Selecting previously unselected package openjdk-17-jre:arm64. Preparing to unpack .../161-openjdk-17-jre_17.0.6+10-1_arm64.deb ... Unpacking openjdk-17-jre:arm64 (17.0.6+10-1) ... Selecting previously unselected package default-jre. Preparing to unpack .../162-default-jre_2%3a1.17-74_arm64.deb ... Unpacking default-jre (2:1.17-74) ... Selecting previously unselected package openjdk-17-jdk-headless:arm64. Preparing to unpack .../163-openjdk-17-jdk-headless_17.0.6+10-1_arm64.deb ... Unpacking openjdk-17-jdk-headless:arm64 (17.0.6+10-1) ... Selecting previously unselected package default-jdk-headless. Preparing to unpack .../164-default-jdk-headless_2%3a1.17-74_arm64.deb ... Unpacking default-jdk-headless (2:1.17-74) ... Selecting previously unselected package openjdk-17-jdk:arm64. Preparing to unpack .../165-openjdk-17-jdk_17.0.6+10-1_arm64.deb ... Unpacking openjdk-17-jdk:arm64 (17.0.6+10-1) ... Selecting previously unselected package default-jdk. Preparing to unpack .../166-default-jdk_2%3a1.17-74_arm64.deb ... Unpacking default-jdk (2:1.17-74) ... Selecting previously unselected package libassuan0:arm64. Preparing to unpack .../167-libassuan0_2.5.5-5_arm64.deb ... Unpacking libassuan0:arm64 (2.5.5-5) ... Selecting previously unselected package gpgconf. Preparing to unpack .../168-gpgconf_2.2.40-1.1_arm64.deb ... Unpacking gpgconf (2.2.40-1.1) ... Selecting previously unselected package libksba8:arm64. Preparing to unpack .../169-libksba8_1.6.3-2_arm64.deb ... Unpacking libksba8:arm64 (1.6.3-2) ... Selecting previously unselected package libnpth0:arm64. Preparing to unpack .../170-libnpth0_1.6-3_arm64.deb ... Unpacking libnpth0:arm64 (1.6-3) ... Selecting previously unselected package dirmngr. Preparing to unpack .../171-dirmngr_2.2.40-1.1_arm64.deb ... Unpacking dirmngr (2.2.40-1.1) ... Selecting previously unselected package gnupg-l10n. Preparing to unpack .../172-gnupg-l10n_2.2.40-1.1_all.deb ... Unpacking gnupg-l10n (2.2.40-1.1) ... Selecting previously unselected package gnupg-utils. Preparing to unpack .../173-gnupg-utils_2.2.40-1.1_arm64.deb ... Unpacking gnupg-utils (2.2.40-1.1) ... Selecting previously unselected package gpg. Preparing to unpack .../174-gpg_2.2.40-1.1_arm64.deb ... Unpacking gpg (2.2.40-1.1) ... Selecting previously unselected package pinentry-curses. Preparing to unpack .../175-pinentry-curses_1.2.1-1_arm64.deb ... Unpacking pinentry-curses (1.2.1-1) ... Selecting previously unselected package gpg-agent. Preparing to unpack .../176-gpg-agent_2.2.40-1.1_arm64.deb ... Unpacking gpg-agent (2.2.40-1.1) ... Selecting previously unselected package gpg-wks-client. Preparing to unpack .../177-gpg-wks-client_2.2.40-1.1_arm64.deb ... Unpacking gpg-wks-client (2.2.40-1.1) ... Selecting previously unselected package gpg-wks-server. Preparing to unpack .../178-gpg-wks-server_2.2.40-1.1_arm64.deb ... Unpacking gpg-wks-server (2.2.40-1.1) ... Selecting previously unselected package gpgsm. Preparing to unpack .../179-gpgsm_2.2.40-1.1_arm64.deb ... Unpacking gpgsm (2.2.40-1.1) ... Selecting previously unselected package gnupg. Preparing to unpack .../180-gnupg_2.2.40-1.1_all.deb ... Unpacking gnupg (2.2.40-1.1) ... Selecting previously unselected package libfile-dirlist-perl. Preparing to unpack .../181-libfile-dirlist-perl_0.05-3_all.deb ... Unpacking libfile-dirlist-perl (0.05-3) ... Selecting previously unselected package libfile-which-perl. Preparing to unpack .../182-libfile-which-perl_1.27-2_all.deb ... Unpacking libfile-which-perl (1.27-2) ... Selecting previously unselected package libfile-homedir-perl. Preparing to unpack .../183-libfile-homedir-perl_1.006-2_all.deb ... Unpacking libfile-homedir-perl (1.006-2) ... Selecting previously unselected package libfile-touch-perl. Preparing to unpack .../184-libfile-touch-perl_0.12-2_all.deb ... Unpacking libfile-touch-perl (0.12-2) ... Selecting previously unselected package libio-pty-perl. Preparing to unpack .../185-libio-pty-perl_1%3a1.17-1_arm64.deb ... Unpacking libio-pty-perl (1:1.17-1) ... Selecting previously unselected package libipc-run-perl. Preparing to unpack .../186-libipc-run-perl_20220807.0-1_all.deb ... Unpacking libipc-run-perl (20220807.0-1) ... Selecting previously unselected package libclass-method-modifiers-perl. Preparing to unpack .../187-libclass-method-modifiers-perl_2.14-1_all.deb ... Unpacking libclass-method-modifiers-perl (2.14-1) ... Selecting previously unselected package libclass-xsaccessor-perl. Preparing to unpack .../188-libclass-xsaccessor-perl_1.19-4+b1_arm64.deb ... Unpacking libclass-xsaccessor-perl (1.19-4+b1) ... Selecting previously unselected package libb-hooks-op-check-perl:arm64. Preparing to unpack .../189-libb-hooks-op-check-perl_0.22-2+b1_arm64.deb ... Unpacking libb-hooks-op-check-perl:arm64 (0.22-2+b1) ... Selecting previously unselected package libdynaloader-functions-perl. Preparing to unpack .../190-libdynaloader-functions-perl_0.003-3_all.deb ... Unpacking libdynaloader-functions-perl (0.003-3) ... Selecting previously unselected package libdevel-callchecker-perl:arm64. Preparing to unpack .../191-libdevel-callchecker-perl_0.008-2_arm64.deb ... Unpacking libdevel-callchecker-perl:arm64 (0.008-2) ... Selecting previously unselected package libparams-classify-perl:arm64. Preparing to unpack .../192-libparams-classify-perl_0.015-2+b1_arm64.deb ... Unpacking libparams-classify-perl:arm64 (0.015-2+b1) ... Selecting previously unselected package libmodule-runtime-perl. Preparing to unpack .../193-libmodule-runtime-perl_0.016-2_all.deb ... Unpacking libmodule-runtime-perl (0.016-2) ... Selecting previously unselected package libimport-into-perl. Preparing to unpack .../194-libimport-into-perl_1.002005-2_all.deb ... Unpacking libimport-into-perl (1.002005-2) ... Selecting previously unselected package librole-tiny-perl. Preparing to unpack .../195-librole-tiny-perl_2.002004-1_all.deb ... Unpacking librole-tiny-perl (2.002004-1) ... Selecting previously unselected package libsub-quote-perl. Preparing to unpack .../196-libsub-quote-perl_2.006008-1_all.deb ... Unpacking libsub-quote-perl (2.006008-1) ... Selecting previously unselected package libmoo-perl. Preparing to unpack .../197-libmoo-perl_2.005005-1_all.deb ... Unpacking libmoo-perl (2.005005-1) ... Selecting previously unselected package libencode-locale-perl. Preparing to unpack .../198-libencode-locale-perl_1.05-3_all.deb ... Unpacking libencode-locale-perl (1.05-3) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../199-libtimedate-perl_2.3300-2_all.deb ... Unpacking libtimedate-perl (2.3300-2) ... Selecting previously unselected package libhttp-date-perl. Preparing to unpack .../200-libhttp-date-perl_6.05-2_all.deb ... Unpacking libhttp-date-perl (6.05-2) ... Selecting previously unselected package libfile-listing-perl. Preparing to unpack .../201-libfile-listing-perl_6.15-1_all.deb ... Unpacking libfile-listing-perl (6.15-1) ... Selecting previously unselected package libhtml-tagset-perl. Preparing to unpack .../202-libhtml-tagset-perl_3.20-6_all.deb ... Unpacking libhtml-tagset-perl (3.20-6) ... Selecting previously unselected package libregexp-ipv6-perl. Preparing to unpack .../203-libregexp-ipv6-perl_0.03-3_all.deb ... Unpacking libregexp-ipv6-perl (0.03-3) ... Selecting previously unselected package liburi-perl. Preparing to unpack .../204-liburi-perl_5.17-1_all.deb ... Unpacking liburi-perl (5.17-1) ... Selecting previously unselected package libhtml-parser-perl:arm64. Preparing to unpack .../205-libhtml-parser-perl_3.81-1_arm64.deb ... Unpacking libhtml-parser-perl:arm64 (3.81-1) ... Selecting previously unselected package libhtml-tree-perl. Preparing to unpack .../206-libhtml-tree-perl_5.07-3_all.deb ... Unpacking libhtml-tree-perl (5.07-3) ... Selecting previously unselected package libclone-perl:arm64. Preparing to unpack .../207-libclone-perl_0.46-1_arm64.deb ... Unpacking libclone-perl:arm64 (0.46-1) ... Selecting previously unselected package libio-html-perl. Preparing to unpack .../208-libio-html-perl_1.004-3_all.deb ... Unpacking libio-html-perl (1.004-3) ... Selecting previously unselected package liblwp-mediatypes-perl. Preparing to unpack .../209-liblwp-mediatypes-perl_6.04-2_all.deb ... Unpacking liblwp-mediatypes-perl (6.04-2) ... Selecting previously unselected package libhttp-message-perl. Preparing to unpack .../210-libhttp-message-perl_6.44-1_all.deb ... Unpacking libhttp-message-perl (6.44-1) ... Selecting previously unselected package libhttp-cookies-perl. Preparing to unpack .../211-libhttp-cookies-perl_6.10-1_all.deb ... Unpacking libhttp-cookies-perl (6.10-1) ... Selecting previously unselected package libhttp-negotiate-perl. Preparing to unpack .../212-libhttp-negotiate-perl_6.01-2_all.deb ... Unpacking libhttp-negotiate-perl (6.01-2) ... Selecting previously unselected package perl-openssl-defaults:arm64. Preparing to unpack .../213-perl-openssl-defaults_7+b1_arm64.deb ... Unpacking perl-openssl-defaults:arm64 (7+b1) ... Selecting previously unselected package libnet-ssleay-perl:arm64. Preparing to unpack .../214-libnet-ssleay-perl_1.92-2+b1_arm64.deb ... Unpacking libnet-ssleay-perl:arm64 (1.92-2+b1) ... Selecting previously unselected package libio-socket-ssl-perl. Preparing to unpack .../215-libio-socket-ssl-perl_2.081-2_all.deb ... Unpacking libio-socket-ssl-perl (2.081-2) ... Selecting previously unselected package libnet-http-perl. Preparing to unpack .../216-libnet-http-perl_6.22-1_all.deb ... Unpacking libnet-http-perl (6.22-1) ... Selecting previously unselected package liblwp-protocol-https-perl. Preparing to unpack .../217-liblwp-protocol-https-perl_6.10-1_all.deb ... Unpacking liblwp-protocol-https-perl (6.10-1) ... Selecting previously unselected package libtry-tiny-perl. Preparing to unpack .../218-libtry-tiny-perl_0.31-2_all.deb ... Unpacking libtry-tiny-perl (0.31-2) ... Selecting previously unselected package libwww-robotrules-perl. Preparing to unpack .../219-libwww-robotrules-perl_6.02-1_all.deb ... Unpacking libwww-robotrules-perl (6.02-1) ... Selecting previously unselected package libwww-perl. Preparing to unpack .../220-libwww-perl_6.68-1_all.deb ... Unpacking libwww-perl (6.68-1) ... Selecting previously unselected package patchutils. Preparing to unpack .../221-patchutils_0.4.2-1_arm64.deb ... Unpacking patchutils (0.4.2-1) ... Selecting previously unselected package wdiff. Preparing to unpack .../222-wdiff_1.2.2-5_arm64.deb ... Unpacking wdiff (1.2.2-5) ... Selecting previously unselected package devscripts. Preparing to unpack .../223-devscripts_2.23.4_arm64.deb ... Unpacking devscripts (2.23.4) ... Selecting previously unselected package libgfortran5:arm64. Preparing to unpack .../224-libgfortran5_12.2.0-14_arm64.deb ... Unpacking libgfortran5:arm64 (12.2.0-14) ... Selecting previously unselected package libgfortran-12-dev:arm64. Preparing to unpack .../225-libgfortran-12-dev_12.2.0-14_arm64.deb ... Unpacking libgfortran-12-dev:arm64 (12.2.0-14) ... Selecting previously unselected package gfortran-12. Preparing to unpack .../226-gfortran-12_12.2.0-14_arm64.deb ... Unpacking gfortran-12 (12.2.0-14) ... Selecting previously unselected package libnl-3-200:arm64. Preparing to unpack .../227-libnl-3-200_3.7.0-0.2+b1_arm64.deb ... Unpacking libnl-3-200:arm64 (3.7.0-0.2+b1) ... Selecting previously unselected package libnl-route-3-200:arm64. Preparing to unpack .../228-libnl-route-3-200_3.7.0-0.2+b1_arm64.deb ... Unpacking libnl-route-3-200:arm64 (3.7.0-0.2+b1) ... Selecting previously unselected package libibverbs1:arm64. Preparing to unpack .../229-libibverbs1_44.0-2_arm64.deb ... Unpacking libibverbs1:arm64 (44.0-2) ... Selecting previously unselected package ibverbs-providers:arm64. Preparing to unpack .../230-ibverbs-providers_44.0-2_arm64.deb ... Unpacking ibverbs-providers:arm64 (44.0-2) ... Selecting previously unselected package unzip. Preparing to unpack .../231-unzip_6.0-28_arm64.deb ... Unpacking unzip (6.0-28) ... Selecting previously unselected package java-wrappers. Preparing to unpack .../232-java-wrappers_0.4_all.deb ... Unpacking java-wrappers (0.4) ... Selecting previously unselected package javahelper. Preparing to unpack .../233-javahelper_0.78_all.deb ... Unpacking javahelper (0.78) ... Selecting previously unselected package libhamcrest-java. Preparing to unpack .../234-libhamcrest-java_2.2-1_all.deb ... Unpacking libhamcrest-java (2.2-1) ... Selecting previously unselected package junit4. Preparing to unpack .../235-junit4_4.13.2-3_all.deb ... Unpacking junit4 (4.13.2-3) ... Selecting previously unselected package libapiguardian-java. Preparing to unpack .../236-libapiguardian-java_1.1.2-1_all.deb ... Unpacking libapiguardian-java (1.1.2-1) ... Selecting previously unselected package libopentest4j-java. Preparing to unpack .../237-libopentest4j-java_1.2.0-4_all.deb ... Unpacking libopentest4j-java (1.2.0-4) ... Selecting previously unselected package libopentest4j-reporting-java. Preparing to unpack .../238-libopentest4j-reporting-java_0.1.0-M1-2_all.deb ... Unpacking libopentest4j-reporting-java (0.1.0-M1-2) ... Selecting previously unselected package libpicocli-java. Preparing to unpack .../239-libpicocli-java_4.6.2-2_all.deb ... Unpacking libpicocli-java (4.6.2-2) ... Selecting previously unselected package libunivocity-parsers-java. Preparing to unpack .../240-libunivocity-parsers-java_2.9.1-1_all.deb ... Unpacking libunivocity-parsers-java (2.9.1-1) ... Selecting previously unselected package junit5. Preparing to unpack .../241-junit5_5.9.2-1_all.deb ... Unpacking junit5 (5.9.2-1) ... Selecting previously unselected package libaopalliance-java. Preparing to unpack .../242-libaopalliance-java_20070526-7_all.deb ... Unpacking libaopalliance-java (20070526-7) ... Selecting previously unselected package libapache-pom-java. Preparing to unpack .../243-libapache-pom-java_29-2_all.deb ... Unpacking libapache-pom-java (29-2) ... Selecting previously unselected package libasm-java. Preparing to unpack .../244-libasm-java_9.4-1_all.deb ... Unpacking libasm-java (9.4-1) ... Selecting previously unselected package libatinject-jsr330-api-java. Preparing to unpack .../245-libatinject-jsr330-api-java_1.0+ds1-5_all.deb ... Unpacking libatinject-jsr330-api-java (1.0+ds1-5) ... Selecting previously unselected package libjaxp1.3-java. Preparing to unpack .../246-libjaxp1.3-java_1.3.05-6_all.deb ... Unpacking libjaxp1.3-java (1.3.05-6) ... Selecting previously unselected package libxml-commons-external-java. Preparing to unpack .../247-libxml-commons-external-java_1.4.01-5_all.deb ... Unpacking libxml-commons-external-java (1.4.01-5) ... Selecting previously unselected package libcommons-parent-java. Preparing to unpack .../248-libcommons-parent-java_56-1_all.deb ... Unpacking libcommons-parent-java (56-1) ... Selecting previously unselected package libcommons-io-java. Preparing to unpack .../249-libcommons-io-java_2.11.0-2_all.deb ... Unpacking libcommons-io-java (2.11.0-2) ... Selecting previously unselected package libcommons-logging-java. Preparing to unpack .../250-libcommons-logging-java_1.2-3_all.deb ... Unpacking libcommons-logging-java (1.2-3) ... Selecting previously unselected package libxmlgraphics-commons-java. Preparing to unpack .../251-libxmlgraphics-commons-java_2.8-2_all.deb ... Unpacking libxmlgraphics-commons-java (2.8-2) ... Selecting previously unselected package libbatik-java. Preparing to unpack .../252-libbatik-java_1.16+dfsg-1_all.deb ... Unpacking libbatik-java (1.16+dfsg-1) ... Selecting previously unselected package libbsh-java. Preparing to unpack .../253-libbsh-java_2.0b4-20_all.deb ... Unpacking libbsh-java (2.0b4-20) ... Selecting previously unselected package libbz2-dev:arm64. Preparing to unpack .../254-libbz2-dev_1.0.8-5+b1_arm64.deb ... Unpacking libbz2-dev:arm64 (1.0.8-5+b1) ... Selecting previously unselected package libgeronimo-interceptor-3.0-spec-java. Preparing to unpack .../255-libgeronimo-interceptor-3.0-spec-java_1.0.1-4_all.deb ... Unpacking libgeronimo-interceptor-3.0-spec-java (1.0.1-4) ... Selecting previously unselected package libcdi-api-java. Preparing to unpack .../256-libcdi-api-java_1.2-3_all.deb ... Unpacking libcdi-api-java (1.2-3) ... Selecting previously unselected package libcommons-collections3-java. Preparing to unpack .../257-libcommons-collections3-java_3.2.2-2_all.deb ... Unpacking libcommons-collections3-java (3.2.2-2) ... Selecting previously unselected package libcommons-beanutils-java. Preparing to unpack .../258-libcommons-beanutils-java_1.9.4-1_all.deb ... Unpacking libcommons-beanutils-java (1.9.4-1) ... Selecting previously unselected package libcommons-cli-java. Preparing to unpack .../259-libcommons-cli-java_1.5.0-1_all.deb ... Unpacking libcommons-cli-java (1.5.0-1) ... Selecting previously unselected package libcommons-codec-java. Preparing to unpack .../260-libcommons-codec-java_1.15-1_all.deb ... Unpacking libcommons-codec-java (1.15-1) ... Selecting previously unselected package libcommons-compress-java. Preparing to unpack .../261-libcommons-compress-java_1.22-1_all.deb ... Unpacking libcommons-compress-java (1.22-1) ... Selecting previously unselected package libcommons-lang-java. Preparing to unpack .../262-libcommons-lang-java_2.6-10_all.deb ... Unpacking libcommons-lang-java (2.6-10) ... Selecting previously unselected package libcommons-configuration-java. Preparing to unpack .../263-libcommons-configuration-java_1.10-6_all.deb ... Unpacking libcommons-configuration-java (1.10-6) ... Selecting previously unselected package libcommons-digester-java. Preparing to unpack .../264-libcommons-digester-java_1.8.1-5_all.deb ... Unpacking libcommons-digester-java (1.8.1-5) ... Selecting previously unselected package libcommons-lang3-java. Preparing to unpack .../265-libcommons-lang3-java_3.12.0-2_all.deb ... Unpacking libcommons-lang3-java (3.12.0-2) ... Selecting previously unselected package libplexus-utils2-java. Preparing to unpack .../266-libplexus-utils2-java_3.4.2-1_all.deb ... Unpacking libplexus-utils2-java (3.4.2-1) ... Selecting previously unselected package libplexus-io-java. Preparing to unpack .../267-libplexus-io-java_3.3.1-2_all.deb ... Unpacking libplexus-io-java (3.3.1-2) ... Selecting previously unselected package libslf4j-java. Preparing to unpack .../268-libslf4j-java_1.7.32-1_all.deb ... Unpacking libslf4j-java (1.7.32-1) ... Selecting previously unselected package libsnappy1v5:arm64. Preparing to unpack .../269-libsnappy1v5_1.1.9-3_arm64.deb ... Unpacking libsnappy1v5:arm64 (1.1.9-3) ... Selecting previously unselected package libsnappy-jni. Preparing to unpack .../270-libsnappy-jni_1.1.8.3-1_arm64.deb ... Unpacking libsnappy-jni (1.1.8.3-1) ... Selecting previously unselected package libsnappy-java. Preparing to unpack .../271-libsnappy-java_1.1.8.3-1_all.deb ... Unpacking libsnappy-java (1.1.8.3-1) ... Selecting previously unselected package libxz-java. Preparing to unpack .../272-libxz-java_1.9-1_all.deb ... Unpacking libxz-java (1.9-1) ... Selecting previously unselected package libplexus-archiver-java. Preparing to unpack .../273-libplexus-archiver-java_4.6.1-1_all.deb ... Unpacking libplexus-archiver-java (4.6.1-1) ... Selecting previously unselected package libplexus-interpolation-java. Preparing to unpack .../274-libplexus-interpolation-java_1.26-1_all.deb ... Unpacking libplexus-interpolation-java (1.26-1) ... Selecting previously unselected package libmaven-archiver-java. Preparing to unpack .../275-libmaven-archiver-java_3.6.0-1_all.deb ... Unpacking libmaven-archiver-java (3.6.0-1) ... Selecting previously unselected package libmaven-shared-utils-java. Preparing to unpack .../276-libmaven-shared-utils-java_3.3.4-1_all.deb ... Unpacking libmaven-shared-utils-java (3.3.4-1) ... Selecting previously unselected package libgeronimo-annotation-1.3-spec-java. Preparing to unpack .../277-libgeronimo-annotation-1.3-spec-java_1.3-1_all.deb ... Unpacking libgeronimo-annotation-1.3-spec-java (1.3-1) ... Selecting previously unselected package liberror-prone-java. Preparing to unpack .../278-liberror-prone-java_2.18.0-1_all.deb ... Unpacking liberror-prone-java (2.18.0-1) ... Selecting previously unselected package libjsr305-java. Preparing to unpack .../279-libjsr305-java_0.1~+svn49-11_all.deb ... Unpacking libjsr305-java (0.1~+svn49-11) ... Selecting previously unselected package libguava-java. Preparing to unpack .../280-libguava-java_31.1-1_all.deb ... Unpacking libguava-java (31.1-1) ... Selecting previously unselected package libguice-java. Preparing to unpack .../281-libguice-java_4.2.3-2_all.deb ... Unpacking libguice-java (4.2.3-2) ... Selecting previously unselected package libmaven-parent-java. Preparing to unpack .../282-libmaven-parent-java_35-1_all.deb ... Unpacking libmaven-parent-java (35-1) ... Selecting previously unselected package libwagon-provider-api-java. Preparing to unpack .../283-libwagon-provider-api-java_3.5.3-1_all.deb ... Unpacking libwagon-provider-api-java (3.5.3-1) ... Selecting previously unselected package libmaven-resolver-java. Preparing to unpack .../284-libmaven-resolver-java_1.6.3-1_all.deb ... Unpacking libmaven-resolver-java (1.6.3-1) ... Selecting previously unselected package libplexus-cipher-java. Preparing to unpack .../285-libplexus-cipher-java_2.0-1_all.deb ... Unpacking libplexus-cipher-java (2.0-1) ... Selecting previously unselected package libplexus-classworlds-java. Preparing to unpack .../286-libplexus-classworlds-java_2.7.0-1_all.deb ... Unpacking libplexus-classworlds-java (2.7.0-1) ... Selecting previously unselected package libplexus-component-annotations-java. Preparing to unpack .../287-libplexus-component-annotations-java_2.1.1-1_all.deb ... Unpacking libplexus-component-annotations-java (2.1.1-1) ... Selecting previously unselected package libplexus-sec-dispatcher-java. Preparing to unpack .../288-libplexus-sec-dispatcher-java_2.0-3_all.deb ... Unpacking libplexus-sec-dispatcher-java (2.0-3) ... Selecting previously unselected package libsisu-inject-java. Preparing to unpack .../289-libsisu-inject-java_0.3.4-2_all.deb ... Unpacking libsisu-inject-java (0.3.4-2) ... Selecting previously unselected package libsisu-plexus-java. Preparing to unpack .../290-libsisu-plexus-java_0.3.4-3_all.deb ... Unpacking libsisu-plexus-java (0.3.4-3) ... Selecting previously unselected package libmaven3-core-java. Preparing to unpack .../291-libmaven3-core-java_3.8.7-1_all.deb ... Unpacking libmaven3-core-java (3.8.7-1) ... Selecting previously unselected package libmaven-shared-io-java. Preparing to unpack .../292-libmaven-shared-io-java_3.0.0-4_all.deb ... Unpacking libmaven-shared-io-java (3.0.0-4) ... Selecting previously unselected package libmaven-file-management-java. Preparing to unpack .../293-libmaven-file-management-java_3.0.0-1_all.deb ... Unpacking libmaven-file-management-java (3.0.0-1) ... Selecting previously unselected package libmaven-jar-plugin-java. Preparing to unpack .../294-libmaven-jar-plugin-java_3.3.0-2_all.deb ... Unpacking libmaven-jar-plugin-java (3.3.0-2) ... Selecting previously unselected package libcommons-text-java. Preparing to unpack .../295-libcommons-text-java_1.10.0-1_all.deb ... Unpacking libcommons-text-java (1.10.0-1) ... Selecting previously unselected package libcommons-validator-java. Preparing to unpack .../296-libcommons-validator-java_1%3a1.7-1_all.deb ... Unpacking libcommons-validator-java (1:1.7-1) ... Selecting previously unselected package libcurl4-openssl-dev:arm64. Preparing to unpack .../297-libcurl4-openssl-dev_7.88.1-10_arm64.deb ... Unpacking libcurl4-openssl-dev:arm64 (7.88.1-10) ... Selecting previously unselected package libcurlpp0:arm64. Preparing to unpack .../298-libcurlpp0_0.8.1-5.1_arm64.deb ... Unpacking libcurlpp0:arm64 (0.8.1-5.1) ... Selecting previously unselected package libcurlpp-dev:arm64. Preparing to unpack .../299-libcurlpp-dev_0.8.1-5.1_arm64.deb ... Unpacking libcurlpp-dev:arm64 (0.8.1-5.1) ... Selecting previously unselected package libjaxen-java. Preparing to unpack .../300-libjaxen-java_1.1.6-4_all.deb ... Unpacking libjaxen-java (1.1.6-4) ... Selecting previously unselected package libdom4j-java. Preparing to unpack .../301-libdom4j-java_2.1.3-2_all.deb ... Unpacking libdom4j-java (2.1.3-2) ... Selecting previously unselected package libhttpcore-java. Preparing to unpack .../302-libhttpcore-java_4.4.16-1_all.deb ... Unpacking libhttpcore-java (4.4.16-1) ... Selecting previously unselected package libhttpclient-java. Preparing to unpack .../303-libhttpclient-java_4.5.14-1_all.deb ... Unpacking libhttpclient-java (4.5.14-1) ... Selecting previously unselected package libdoxia-core-java. Preparing to unpack .../304-libdoxia-core-java_1.12.0-1_all.deb ... Unpacking libdoxia-core-java (1.12.0-1) ... Selecting previously unselected package libfontbox2-java. Preparing to unpack .../305-libfontbox2-java_2.0.27-2_all.deb ... Unpacking libfontbox2-java (2.0.27-2) ... Selecting previously unselected package libqdox-java. Preparing to unpack .../306-libqdox-java_1.12.1-3_all.deb ... Unpacking libqdox-java (1.12.1-3) ... Selecting previously unselected package libfop-java. Preparing to unpack .../307-libfop-java_1%3a2.8-2_all.deb ... Unpacking libfop-java (1:2.8-2) ... Selecting previously unselected package libitext1-java. Preparing to unpack .../308-libitext1-java_1.4-7_all.deb ... Unpacking libitext1-java (1.4-7) ... Selecting previously unselected package libxbean-reflect-java. Preparing to unpack .../309-libxbean-reflect-java_4.5-8_all.deb ... Unpacking libxbean-reflect-java (4.5-8) ... Selecting previously unselected package libplexus-container-default-java. Preparing to unpack .../310-libplexus-container-default-java_2.1.1-1_all.deb ... Unpacking libplexus-container-default-java (2.1.1-1) ... Selecting previously unselected package libdoxia-java. Preparing to unpack .../311-libdoxia-java_1.12.0-1_all.deb ... Unpacking libdoxia-java (1.12.0-1) ... Selecting previously unselected package libmaven-reporting-api-java. Preparing to unpack .../312-libmaven-reporting-api-java_3.1.1-1_all.deb ... Unpacking libmaven-reporting-api-java (3.1.1-1) ... Selecting previously unselected package libplexus-i18n-java. Preparing to unpack .../313-libplexus-i18n-java_1.0-beta-10-6_all.deb ... Unpacking libplexus-i18n-java (1.0-beta-10-6) ... Selecting previously unselected package velocity. Preparing to unpack .../314-velocity_1.7-6_all.deb ... Unpacking velocity (1.7-6) ... Selecting previously unselected package libplexus-velocity-java. Preparing to unpack .../315-libplexus-velocity-java_1.2-3.1_all.deb ... Unpacking libplexus-velocity-java (1.2-3.1) ... Selecting previously unselected package liboro-java. Preparing to unpack .../316-liboro-java_2.0.8a-14_all.deb ... Unpacking liboro-java (2.0.8a-14) ... Selecting previously unselected package libvelocity-tools-java. Preparing to unpack .../317-libvelocity-tools-java_2.0-8_all.deb ... Unpacking libvelocity-tools-java (2.0-8) ... Selecting previously unselected package libxml-commons-resolver1.1-java. Preparing to unpack .../318-libxml-commons-resolver1.1-java_1.2-11_all.deb ... Unpacking libxml-commons-resolver1.1-java (1.2-11) ... Selecting previously unselected package libxerces2-java. Preparing to unpack .../319-libxerces2-java_2.12.2-1_all.deb ... Unpacking libxerces2-java (2.12.2-1) ... Selecting previously unselected package libxalan2-java. Preparing to unpack .../320-libxalan2-java_2.7.2-4_all.deb ... Unpacking libxalan2-java (2.7.2-4) ... Selecting previously unselected package libdoxia-sitetools-java. Preparing to unpack .../321-libdoxia-sitetools-java_1.11.1-1_all.deb ... Unpacking libdoxia-sitetools-java (1.11.1-1) ... Selecting previously unselected package libel-api-java. Preparing to unpack .../322-libel-api-java_3.0.0-3_all.deb ... Unpacking libel-api-java (3.0.0-3) ... Selecting previously unselected package libevent-2.1-7:arm64. Preparing to unpack .../323-libevent-2.1-7_2.1.12-stable-8_arm64.deb ... Unpacking libevent-2.1-7:arm64 (2.1.12-stable-8) ... Selecting previously unselected package libevent-core-2.1-7:arm64. Preparing to unpack .../324-libevent-core-2.1-7_2.1.12-stable-8_arm64.deb ... Unpacking libevent-core-2.1-7:arm64 (2.1.12-stable-8) ... Selecting previously unselected package libevent-extra-2.1-7:arm64. Preparing to unpack .../325-libevent-extra-2.1-7_2.1.12-stable-8_arm64.deb ... Unpacking libevent-extra-2.1-7:arm64 (2.1.12-stable-8) ... Selecting previously unselected package libevent-pthreads-2.1-7:arm64. Preparing to unpack .../326-libevent-pthreads-2.1-7_2.1.12-stable-8_arm64.deb ... Unpacking libevent-pthreads-2.1-7:arm64 (2.1.12-stable-8) ... Selecting previously unselected package libevent-openssl-2.1-7:arm64. Preparing to unpack .../327-libevent-openssl-2.1-7_2.1.12-stable-8_arm64.deb ... Unpacking libevent-openssl-2.1-7:arm64 (2.1.12-stable-8) ... Selecting previously unselected package libevent-dev. Preparing to unpack .../328-libevent-dev_2.1.12-stable-8_arm64.deb ... Unpacking libevent-dev (2.1.12-stable-8) ... Selecting previously unselected package librdmacm1:arm64. Preparing to unpack .../329-librdmacm1_44.0-2_arm64.deb ... Unpacking librdmacm1:arm64 (44.0-2) ... Selecting previously unselected package libfabric1:arm64. Preparing to unpack .../330-libfabric1_1.17.0-3_arm64.deb ... Unpacking libfabric1:arm64 (1.17.0-3) ... Selecting previously unselected package libfmt9:arm64. Preparing to unpack .../331-libfmt9_9.1.0+ds1-2_arm64.deb ... Unpacking libfmt9:arm64 (9.1.0+ds1-2) ... Selecting previously unselected package libfmt-dev:arm64. Preparing to unpack .../332-libfmt-dev_9.1.0+ds1-2_arm64.deb ... Unpacking libfmt-dev:arm64 (9.1.0+ds1-2) ... Selecting previously unselected package libhwloc15:arm64. Preparing to unpack .../333-libhwloc15_2.9.0-1_arm64.deb ... Unpacking libhwloc15:arm64 (2.9.0-1) ... Selecting previously unselected package libnuma1:arm64. Preparing to unpack .../334-libnuma1_2.0.16-1_arm64.deb ... Unpacking libnuma1:arm64 (2.0.16-1) ... Selecting previously unselected package libnuma-dev:arm64. Preparing to unpack .../335-libnuma-dev_2.0.16-1_arm64.deb ... Unpacking libnuma-dev:arm64 (2.0.16-1) ... Selecting previously unselected package libltdl7:arm64. Preparing to unpack .../336-libltdl7_2.4.7-5_arm64.deb ... Unpacking libltdl7:arm64 (2.4.7-5) ... Selecting previously unselected package libltdl-dev:arm64. Preparing to unpack .../337-libltdl-dev_2.4.7-5_arm64.deb ... Unpacking libltdl-dev:arm64 (2.4.7-5) ... Selecting previously unselected package libhwloc-dev:arm64. Preparing to unpack .../338-libhwloc-dev_2.9.0-1_arm64.deb ... Unpacking libhwloc-dev:arm64 (2.9.0-1) ... Selecting previously unselected package libpciaccess0:arm64. Preparing to unpack .../339-libpciaccess0_0.17-2_arm64.deb ... Unpacking libpciaccess0:arm64 (0.17-2) ... Selecting previously unselected package libxnvctrl0:arm64. Preparing to unpack .../340-libxnvctrl0_525.85.05-1_arm64.deb ... Unpacking libxnvctrl0:arm64 (525.85.05-1) ... Selecting previously unselected package ocl-icd-libopencl1:arm64. Preparing to unpack .../341-ocl-icd-libopencl1_2.3.1-1_arm64.deb ... Unpacking ocl-icd-libopencl1:arm64 (2.3.1-1) ... Selecting previously unselected package libhwloc-plugins:arm64. Preparing to unpack .../342-libhwloc-plugins_2.9.0-1_arm64.deb ... Unpacking libhwloc-plugins:arm64 (2.9.0-1) ... Selecting previously unselected package libnl-3-dev:arm64. Preparing to unpack .../343-libnl-3-dev_3.7.0-0.2+b1_arm64.deb ... Unpacking libnl-3-dev:arm64 (3.7.0-0.2+b1) ... Selecting previously unselected package libnl-route-3-dev:arm64. Preparing to unpack .../344-libnl-route-3-dev_3.7.0-0.2+b1_arm64.deb ... Unpacking libnl-route-3-dev:arm64 (3.7.0-0.2+b1) ... Selecting previously unselected package libibverbs-dev:arm64. Preparing to unpack .../345-libibverbs-dev_44.0-2_arm64.deb ... Unpacking libibverbs-dev:arm64 (44.0-2) ... Selecting previously unselected package libjansi-java. Preparing to unpack .../346-libjansi-java_2.4.0-2_all.deb ... Unpacking libjansi-java (2.4.0-2) ... Selecting previously unselected package libjcommander-java. Preparing to unpack .../347-libjcommander-java_1.71-4_all.deb ... Unpacking libjcommander-java (1.71-4) ... Selecting previously unselected package libjsp-api-java. Preparing to unpack .../348-libjsp-api-java_2.3.4-3_all.deb ... Unpacking libjsp-api-java (2.3.4-3) ... Selecting previously unselected package libservlet-api-java. Preparing to unpack .../349-libservlet-api-java_4.0.1-2_all.deb ... Unpacking libservlet-api-java (4.0.1-2) ... Selecting previously unselected package libwebsocket-api-java. Preparing to unpack .../350-libwebsocket-api-java_1.1-2_all.deb ... Unpacking libwebsocket-api-java (1.1-2) ... Selecting previously unselected package libjetty9-java. Preparing to unpack .../351-libjetty9-java_9.4.50-4_all.deb ... Unpacking libjetty9-java (9.4.50-4) ... Selecting previously unselected package libjs-jquery. Preparing to unpack .../352-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Selecting previously unselected package libjs-jquery-ui. Preparing to unpack .../353-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... Selecting previously unselected package libjsoup-java. Preparing to unpack .../354-libjsoup-java_1.15.3-1_all.deb ... Unpacking libjsoup-java (1.15.3-1) ... Selecting previously unselected package libjtidy-java. Preparing to unpack .../355-libjtidy-java_7+svn20110807-5_all.deb ... Unpacking libjtidy-java (7+svn20110807-5) ... Selecting previously unselected package liblzma-dev:arm64. Preparing to unpack .../356-liblzma-dev_5.4.1-0.2_arm64.deb ... Unpacking liblzma-dev:arm64 (5.4.1-0.2) ... Selecting previously unselected package libmaven-clean-plugin-java. Preparing to unpack .../357-libmaven-clean-plugin-java_3.2.0-2_all.deb ... Unpacking libmaven-clean-plugin-java (3.2.0-2) ... Selecting previously unselected package libmaven-common-artifact-filters-java. Preparing to unpack .../358-libmaven-common-artifact-filters-java_3.3.2-1_all.deb ... Unpacking libmaven-common-artifact-filters-java (3.3.2-1) ... Selecting previously unselected package libmaven-shared-incremental-java. Preparing to unpack .../359-libmaven-shared-incremental-java_1.1-3_all.deb ... Unpacking libmaven-shared-incremental-java (1.1-3) ... Selecting previously unselected package libplexus-compiler-java. Preparing to unpack .../360-libplexus-compiler-java_2.12.1-1_all.deb ... Unpacking libplexus-compiler-java (2.12.1-1) ... Selecting previously unselected package libqdox2-java. Preparing to unpack .../361-libqdox2-java_2.0.3-1_all.deb ... Unpacking libqdox2-java (2.0.3-1) ... Selecting previously unselected package libplexus-languages-java. Preparing to unpack .../362-libplexus-languages-java_1.1.1-2_all.deb ... Unpacking libplexus-languages-java (1.1.1-2) ... Selecting previously unselected package libmaven-compiler-plugin-java. Preparing to unpack .../363-libmaven-compiler-plugin-java_3.10.1-2_all.deb ... Unpacking libmaven-compiler-plugin-java (3.10.1-2) ... Selecting previously unselected package libplexus-build-api-java. Preparing to unpack .../364-libplexus-build-api-java_0.0.7-4_all.deb ... Unpacking libplexus-build-api-java (0.0.7-4) ... Selecting previously unselected package libmaven-filtering-java. Preparing to unpack .../365-libmaven-filtering-java_3.3.0-1_all.deb ... Unpacking libmaven-filtering-java (3.3.0-1) ... Selecting previously unselected package libmaven-reporting-impl-java. Preparing to unpack .../366-libmaven-reporting-impl-java_3.2.0-2_all.deb ... Unpacking libmaven-reporting-impl-java (3.2.0-2) ... Selecting previously unselected package libplexus-container-default1.5-java. Preparing to unpack .../367-libplexus-container-default1.5-java_2.1.1-1_all.deb ... Unpacking libplexus-container-default1.5-java (2.1.1-1) ... Selecting previously unselected package libplexus-ant-factory-java. Preparing to unpack .../368-libplexus-ant-factory-java_1.0~alpha2.1-4_all.deb ... Unpacking libplexus-ant-factory-java (1.0~alpha2.1-4) ... Selecting previously unselected package libplexus-bsh-factory-java. Preparing to unpack .../369-libplexus-bsh-factory-java_1.0~alpha7-5_all.deb ... Unpacking libplexus-bsh-factory-java (1.0~alpha7-5) ... Selecting previously unselected package libmaven-plugin-tools-java. Preparing to unpack .../370-libmaven-plugin-tools-java_3.7.1-1_all.deb ... Unpacking libmaven-plugin-tools-java (3.7.1-1) ... Selecting previously unselected package libmaven-reporting-exec-java. Preparing to unpack .../371-libmaven-reporting-exec-java_1.6.0-1_all.deb ... Unpacking libmaven-reporting-exec-java (1.6.0-1) ... Selecting previously unselected package libmaven-resources-plugin-java. Preparing to unpack .../372-libmaven-resources-plugin-java_3.3.0-1_all.deb ... Unpacking libmaven-resources-plugin-java (3.3.0-1) ... Selecting previously unselected package libmaven-site-plugin-java. Preparing to unpack .../373-libmaven-site-plugin-java_3.12.1-2_all.deb ... Unpacking libmaven-site-plugin-java (3.12.1-2) ... Selecting previously unselected package libmunge2. Preparing to unpack .../374-libmunge2_0.5.15-2_arm64.deb ... Unpacking libmunge2 (0.5.15-2) ... Selecting previously unselected package libmuparserx4.0.11:arm64. Preparing to unpack .../375-libmuparserx4.0.11_4.0.11-2_arm64.deb ... Unpacking libmuparserx4.0.11:arm64 (4.0.11-2) ... Selecting previously unselected package libmuparserx-dev:arm64. Preparing to unpack .../376-libmuparserx-dev_4.0.11-2_arm64.deb ... Unpacking libmuparserx-dev:arm64 (4.0.11-2) ... Selecting previously unselected package libpmix2:arm64. Preparing to unpack .../377-libpmix2_4.2.2-1+b1_arm64.deb ... Unpacking libpmix2:arm64 (4.2.2-1+b1) ... Selecting previously unselected package libucx0:arm64. Preparing to unpack .../378-libucx0_1.13.1-1_arm64.deb ... Unpacking libucx0:arm64 (1.13.1-1) ... Selecting previously unselected package libopenmpi3:arm64. Preparing to unpack .../379-libopenmpi3_4.1.4-3+b1_arm64.deb ... Unpacking libopenmpi3:arm64 (4.1.4-3+b1) ... Selecting previously unselected package openmpi-common. Preparing to unpack .../380-openmpi-common_4.1.4-3_all.deb ... Unpacking openmpi-common (4.1.4-3) ... Selecting previously unselected package zlib1g-dev:arm64. Preparing to unpack .../381-zlib1g-dev_1%3a1.2.13.dfsg-1_arm64.deb ... Unpacking zlib1g-dev:arm64 (1:1.2.13.dfsg-1) ... Selecting previously unselected package libpmix-dev:arm64. Preparing to unpack .../382-libpmix-dev_4.2.2-1+b1_arm64.deb ... Unpacking libpmix-dev:arm64 (4.2.2-1+b1) ... Selecting previously unselected package openmpi-bin. Preparing to unpack .../383-openmpi-bin_4.1.4-3+b1_arm64.deb ... Unpacking openmpi-bin (4.1.4-3+b1) ... Selecting previously unselected package libopenmpi-dev:arm64. Preparing to unpack .../384-libopenmpi-dev_4.1.4-3+b1_arm64.deb ... Unpacking libopenmpi-dev:arm64 (4.1.4-3+b1) ... Selecting previously unselected package libprotobuf32:arm64. Preparing to unpack .../385-libprotobuf32_3.21.12-3_arm64.deb ... Unpacking libprotobuf32:arm64 (3.21.12-3) ... Selecting previously unselected package libprotobuf-lite32:arm64. Preparing to unpack .../386-libprotobuf-lite32_3.21.12-3_arm64.deb ... Unpacking libprotobuf-lite32:arm64 (3.21.12-3) ... Selecting previously unselected package libprotobuf-dev:arm64. Preparing to unpack .../387-libprotobuf-dev_3.21.12-3_arm64.deb ... Unpacking libprotobuf-dev:arm64 (3.21.12-3) ... Selecting previously unselected package libprotoc32:arm64. Preparing to unpack .../388-libprotoc32_3.21.12-3_arm64.deb ... Unpacking libprotoc32:arm64 (3.21.12-3) ... Selecting previously unselected package libspdlog1.10:arm64. Preparing to unpack .../389-libspdlog1.10_1%3a1.10.0+ds-0.4_arm64.deb ... Unpacking libspdlog1.10:arm64 (1:1.10.0+ds-0.4) ... Selecting previously unselected package libspdlog-dev:arm64. Preparing to unpack .../390-libspdlog-dev_1%3a1.10.0+ds-0.4_arm64.deb ... Unpacking libspdlog-dev:arm64 (1:1.10.0+ds-0.4) ... Selecting previously unselected package libssl-dev:arm64. Preparing to unpack .../391-libssl-dev_3.0.9-1_arm64.deb ... Unpacking libssl-dev:arm64 (3.0.9-1) ... Selecting previously unselected package libsurefire-java. Preparing to unpack .../392-libsurefire-java_2.22.3-2_all.deb ... Unpacking libsurefire-java (2.22.3-2) ... Selecting previously unselected package libwagon-file-java. Preparing to unpack .../393-libwagon-file-java_3.5.3-1_all.deb ... Unpacking libwagon-file-java (3.5.3-1) ... Selecting previously unselected package libwagon-http-shaded-java. Preparing to unpack .../394-libwagon-http-shaded-java_3.5.3-1_all.deb ... Unpacking libwagon-http-shaded-java (3.5.3-1) ... Selecting previously unselected package libxml2-utils. Preparing to unpack .../395-libxml2-utils_2.9.14+dfsg-1.2_arm64.deb ... Unpacking libxml2-utils (2.9.14+dfsg-1.2) ... Selecting previously unselected package maven. Preparing to unpack .../396-maven_3.8.7-1_all.deb ... Unpacking maven (3.8.7-1) ... Selecting previously unselected package maven-repo-helper. Preparing to unpack .../397-maven-repo-helper_1.11_all.deb ... Unpacking maven-repo-helper (1.11) ... Selecting previously unselected package maven-debian-helper. Preparing to unpack .../398-maven-debian-helper_2.6.3_all.deb ... Unpacking maven-debian-helper (2.6.3) ... Selecting previously unselected package protobuf-compiler. Preparing to unpack .../399-protobuf-compiler_3.21.12-3_arm64.deb ... Unpacking protobuf-compiler (3.21.12-3) ... Selecting previously unselected package rapidjson-dev. Preparing to unpack .../400-rapidjson-dev_1.1.0+dfsg2-7.1_all.deb ... Unpacking rapidjson-dev (1.1.0+dfsg2-7.1) ... Selecting previously unselected package testng. Preparing to unpack .../401-testng_6.9.12-4_all.deb ... Unpacking testng (6.9.12-4) ... Selecting previously unselected package uuid-dev:arm64. Preparing to unpack .../402-uuid-dev_2.38.1-5pureos1_arm64.deb ... Unpacking uuid-dev:arm64 (2.38.1-5pureos1) ... Setting up libksba8:arm64 (1.6.3-2) ... Setting up media-types (10.0.0) ... Setting up libpipeline1:arm64 (1.5.7-1) ... Setting up libgraphite2-3:arm64 (1.3.14-1) ... Setting up liblcms2-2:arm64 (2.14-2) ... Setting up libpixman-1-0:arm64 (0.42.2-1) ... Setting up libjcommander-java (1.71-4) ... Setting up wdiff (1.2.2-5) ... Setting up catch2 (2.13.10-1) ... Setting up libpciaccess0:arm64 (0.17-2) ... Setting up libslf4j-java (1.7.32-1) ... Setting up libfile-which-perl (1.27-2) ... Setting up libxau6:arm64 (1:1.0.9-1) ... Setting up libplexus-utils2-java (3.4.2-1) ... Setting up libpsl5:arm64 (0.21.2-1) ... Setting up libplexus-classworlds-java (2.7.0-1) ... Setting up libqdox-java (1.12.1-3) ... Setting up libopentest4j-reporting-java (0.1.0-M1-2) ... Setting up libicu72:arm64 (72.1-3) ... Setting up libplexus-build-api-java (0.0.7-4) ... Setting up liblerc4:arm64 (4.0.0+ds-2) ... Setting up libjsr305-java (0.1~+svn49-11) ... Setting up bsdextrautils (2.38.1-5pureos1) ... Setting up hicolor-icon-theme (0.17-2) ... Setting up java-common (0.74) ... Setting up libdynaloader-functions-perl (0.003-3) ... Setting up libdatrie1:arm64 (0.2.13-2+b1) ... Setting up libclass-method-modifiers-perl (2.14-1) ... Setting up libqdox2-java (2.0.3-1) ... Setting up libaopalliance-java (20070526-7) ... Setting up libcommons-cli-java (1.5.0-1) ... Setting up libio-pty-perl (1:1.17-1) ... Setting up libmagic-mgc (1:5.44-3) ... Setting up libclone-perl:arm64 (0.46-1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:arm64 (2.74.6-2) ... No schema files found: doing nothing. Setting up libglvnd0:arm64 (1.6.0-1) ... Setting up libhtml-tagset-perl (3.20-6) ... Setting up unzip (6.0-28) ... Setting up libcbor0.8:arm64 (0.8.0-2+b1) ... Setting up libdebhelper-perl (13.11.4) ... Setting up libbrotli1:arm64 (1.0.9-2+b6) ... Setting up libsqlite3-0:arm64 (3.40.1-2) ... Setting up liblwp-mediatypes-perl (6.04-2) ... Setting up libgdk-pixbuf2.0-common (2.42.10+dfsg-1) ... Setting up libpicocli-java (4.6.2-2) ... Setting up libasm-java (9.4-1) ... Setting up x11-common (1:7.7+23) ... invoke-rc.d: could not determine current runlevel invoke-rc.d: WARNING: No init system and policy-rc.d missing! Defaulting to block. Setting up libtry-tiny-perl (0.31-2) ... Setting up libsensors-config (1:3.6.0-7.1) ... Setting up libnghttp2-14:arm64 (1.52.0-1) ... Setting up libmagic1:arm64 (1:5.44-3) ... Setting up libdeflate0:arm64 (1.14-1) ... Setting up perl-openssl-defaults:arm64 (7+b1) ... Setting up gettext-base (0.21-12) ... Setting up m4 (1.4.19-3) ... Setting up libel-api-java (3.0.0-3) ... Setting up libmuparserx4.0.11:arm64 (4.0.11-2) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libplexus-component-annotations-java (2.1.1-1) ... Setting up libnpth0:arm64 (1.6-3) ... Setting up file (1:5.44-3) ... Setting up libassuan0:arm64 (2.5.5-5) ... Setting up libunivocity-parsers-java (2.9.1-1) ... Setting up libjbig0:arm64 (2.1-6.1) ... Setting up rapidjson-dev (1.1.0+dfsg2-7.1) ... Setting up liboro-java (2.0.8a-14) ... Setting up libsnappy1v5:arm64 (1.1.9-3) ... Setting up libfontbox2-java (2.0.27-2) ... Setting up libsasl2-modules-db:arm64 (2.1.28+dfsg-10) ... Setting up libgeronimo-annotation-1.3-spec-java (1.3-1) ... Setting up libgeronimo-interceptor-3.0-spec-java (1.0.1-4) ... Setting up libcommons-collections3-java (3.2.2-2) ... Setting up libasound2-data (1.2.8-1) ... Setting up autotools-dev (20220109.1) ... Setting up libz3-4:arm64 (4.8.12-3.1) ... Setting up libuv1:arm64 (1.44.2-1) ... Setting up libmunge2 (0.5.15-2) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-2) ... Setting up libjaxen-java (1.1.6-4) ... Setting up libapiguardian-java (1.1.2-1) ... Setting up libx11-data (2:1.8.4-2) ... Setting up libnspr4:arm64 (2:4.35-1) ... Setting up gnupg-l10n (2.2.40-1.1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libjtidy-java (7+svn20110807-5) ... Setting up uuid-dev:arm64 (2.38.1-5pureos1) ... Setting up libjansi-java (2.4.0-2) ... Setting up libapache-pom-java (29-2) ... Setting up libavahi-common-data:arm64 (0.8-10) ... Setting up libatinject-jsr330-api-java (1.0+ds1-5) ... Setting up libdbus-1-3:arm64 (1.14.6-1) ... Setting up libwebsocket-api-java (1.1-2) ... Setting up libfribidi0:arm64 (1.0.8-2.1) ... Setting up libproc2-0:arm64 (2:4.0.2-3) ... Setting up libplexus-interpolation-java (1.26-1) ... Setting up libssl-dev:arm64 (3.0.9-1) ... Setting up libpng16-16:arm64 (1.6.39-2) ... Setting up libhwloc15:arm64 (2.9.0-1) ... Setting up libxml-commons-resolver1.1-java (1.2-11) ... Setting up libevent-core-2.1-7:arm64 (2.1.12-stable-8) ... Setting up libxz-java (1.9-1) ... Setting up libitext1-java (1.4-7) ... Setting up libevent-2.1-7:arm64 (2.1.12-stable-8) ... Setting up libio-html-perl (1.004-3) ... Setting up autopoint (0.21-12) ... Setting up libb-hooks-op-check-perl:arm64 (0.22-2+b1) ... Setting up libjsoncpp25:arm64 (1.9.5-4) ... Setting up fonts-dejavu-core (2.37-6) ... Setting up libipc-run-perl (20220807.0-1) ... Setting up libpcsclite1:arm64 (1.9.9-2) ... Setting up libsensors5:arm64 (1:3.6.0-7.1) ... Setting up libncursesw6:arm64 (6.4-4) ... Setting up libltdl7:arm64 (2.4.7-5) ... Setting up libhamcrest-java (2.2-1) ... Setting up libglapi-mesa:arm64 (22.3.6-1+deb12u1) ... Setting up libbsh-java (2.0b4-20) ... Setting up libjsp-api-java (2.3.4-3) ... Setting up libsasl2-2:arm64 (2.1.28+dfsg-10) ... Setting up libgfortran5:arm64 (12.2.0-14) ... Setting up autoconf (2.71-3) ... Setting up libwebp7:arm64 (1.2.4-0.2) ... Setting up libfmt9:arm64 (9.1.0+ds1-2) ... Setting up libtimedate-perl (2.3300-2) ... Setting up libregexp-ipv6-perl (0.03-3) ... Setting up liblzma-dev:arm64 (5.4.1-0.2) ... Setting up libgif7:arm64 (5.2.1-2.5) ... Setting up zlib1g-dev:arm64 (1:1.2.13.dfsg-1) ... Setting up libnuma1:arm64 (2.0.16-1) ... Setting up libprotobuf32:arm64 (3.21.12-3) ... Setting up libmd0:arm64 (1.0.4-2) ... Setting up sensible-utils (0.0.17+nmu1) ... Setting up ocl-icd-libopencl1:arm64 (2.3.1-1) ... Setting up libxshmfence1:arm64 (1.3-1) ... Setting up libjsoup-java (1.15.3-1) ... Setting up at-spi2-common (2.46.0-5) ... Setting up librhash0:arm64 (1.4.3-3) ... Setting up libtiff6:arm64 (4.5.0-6) ... Setting up libuchardet0:arm64 (0.0.7-1) ... Setting up libxml-commons-external-java (1.4.01-5) ... Setting up procps (2:4.0.2-3) ... Setting up libxbean-reflect-java (4.5-8) ... Setting up libasound2:arm64 (1.2.8-1+b1) ... Setting up libnl-3-200:arm64 (3.7.0-0.2+b1) ... Setting up libservlet-api-java (4.0.1-2) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libopentest4j-java (1.2.0-4) ... Setting up openmpi-common (4.1.4-3) ... Setting up libprotobuf-lite32:arm64 (3.21.12-3) ... Setting up libsub-override-perl (0.09-4) ... Setting up libthai-data (0.1.29-1) ... Setting up libssh2-1:arm64 (1.10.0-3+b1) ... Setting up netbase (6.4) ... Setting up sgml-base (1.31) ... Setting up libsub-quote-perl (2.006008-1) ... Setting up libclass-xsaccessor-perl (1.19-4+b1) ... Setting up libgtk2.0-common (2.24.33-2) ... Setting up cmake-data (3.25.1-1) ... Setting up libatk1.0-0:arm64 (2.46.0-5) ... Setting up libwagon-http-shaded-java (3.5.3-1) ... Setting up libhttpcore-java (4.4.16-1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libxerces2-java (2.12.2-1) ... Setting up libfile-dirlist-perl (0.05-3) ... Setting up libjaxp1.3-java (1.3.05-6) ... Setting up libfido2-1:arm64 (1.12.0-2+b1) ... Setting up libfile-homedir-perl (1.006-2) ... Setting up libbsd0:arm64 (0.11.7-2) ... Setting up libdrm-common (2.4.114-1) ... Setting up libcdi-api-java (1.2-3) ... Setting up libelf1:arm64 (0.188-2.1) ... Setting up libsnappy-jni (1.1.8.3-1) ... Setting up readline-common (8.2-1.3) ... Setting up libxml2:arm64 (2.9.14+dfsg-1.2) ... Setting up liburi-perl (5.17-1) ... Setting up chrpath (0.16-2+b1) ... Setting up libfile-touch-perl (0.12-2) ... Setting up dctrl-tools (2.24-3) ... Setting up libevent-pthreads-2.1-7:arm64 (2.1.12-stable-8) ... Setting up libbz2-dev:arm64 (1.0.8-5+b1) ... Setting up libprotoc32:arm64 (3.21.12-3) ... Setting up libnet-ssleay-perl:arm64 (1.92-2+b1) ... Setting up libspdlog1.10:arm64 (1:1.10.0+ds-0.4) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up pinentry-curses (1.2.1-1) ... Setting up libdom4j-java (2.1.3-2) ... Setting up libfile-stripnondeterminism-perl (1.13.1-1) ... Setting up libwagon-provider-api-java (3.5.3-1) ... Setting up libhttp-date-perl (6.05-2) ... Setting up libxdmcp6:arm64 (1:1.1.2-3) ... Setting up libevent-extra-2.1-7:arm64 (2.1.12-stable-8) ... Setting up libxcb1:arm64 (1.15-1) ... Setting up gettext (0.21-12) ... Setting up libjetty9-java (9.4.50-4) ... Setting up libxcb-xfixes0:arm64 (1.15-1) ... Setting up java-wrappers (0.4) ... Setting up libfile-listing-perl (6.15-1) ... Setting up libplexus-languages-java (1.1.1-2) ... Setting up protobuf-compiler (3.21.12-3) ... Setting up libmuparserx-dev:arm64 (4.0.11-2) ... Setting up libtool (2.4.7-5) ... Setting up libarchive13:arm64 (3.6.2-1) ... Setting up libxcb-render0:arm64 (1.15-1) ... Setting up fontconfig-config (2.14.1-4) ... Setting up libxcb-glx0:arm64 (1.15-1) ... Setting up libmaven-parent-java (35-1) ... Setting up libedit2:arm64 (3.1-20221030-2) ... Setting up libreadline8:arm64 (8.2-1.3) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:arm64 (0.8-10) ... Setting up libcommons-logging-java (1.2-3) ... Setting up libevent-openssl-2.1-7:arm64 (2.1.12-stable-8) ... Setting up libnet-http-perl (6.22-1) ... Setting up libsisu-inject-java (0.3.4-2) ... Setting up libnss3:arm64 (2:3.87.1-1) ... Setting up libgfortran-12-dev:arm64 (12.2.0-14) ... Setting up libxcb-shm0:arm64 (1.15-1) ... Setting up libdevel-callchecker-perl:arm64 (0.008-2) ... Setting up libcommons-lang-java (2.6-10) ... Setting up libldap-2.5-0:arm64 (2.5.13+dfsg-5) ... Setting up libplexus-cipher-java (2.0-1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libnuma-dev:arm64 (2.0.16-1) ... Setting up libnl-route-3-200:arm64 (3.7.0-0.2+b1) ... Setting up libprotobuf-dev:arm64 (3.21.12-3) ... Setting up libxcb-present0:arm64 (1.15-1) ... Setting up dh-autoreconf (20) ... Setting up patchutils (0.4.2-1) ... Setting up libltdl-dev:arm64 (2.4.7-5) ... Setting up libthai0:arm64 (0.1.29-1) ... Setting up libsisu-plexus-java (0.3.4-3) ... Setting up gfortran-12 (12.2.0-14) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:arm64 (2.12.1+dfsg-5) ... Setting up libxcb-sync1:arm64 (1.15-1) ... Setting up libxalan2-java (2.7.2-4) ... Setting up testng (6.9.12-4) ... Setting up shared-mime-info (2.2-1) ... Setting up libevent-dev (2.1.12-stable-8) ... Setting up libfmt-dev:arm64 (9.1.0+ds1-2) ... Setting up libcommons-lang3-java (3.12.0-2) ... Setting up libxcb-dri2-0:arm64 (1.15-1) ... Setting up dh-strip-nondeterminism (1.13.1-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up libdrm2:arm64 (2.4.114-1+b1) ... Setting up dwz (0.15-1) ... Setting up libnl-3-dev:arm64 (3.7.0-0.2+b1) ... Setting up libmaven-common-artifact-filters-java (3.3.2-1) ... Setting up groff-base (1.22.4-10) ... Setting up libxcb-randr0:arm64 (1.15-1) ... Setting up libhtml-parser-perl:arm64 (3.81-1) ... Setting up libllvm15:arm64 (1:15.0.6-4+b1) ... Setting up gpgconf (2.2.40-1.1) ... Setting up libcommons-beanutils-java (1.9.4-1) ... Setting up libcurl4:arm64 (7.88.1-10) ... Setting up libplexus-sec-dispatcher-java (2.0-3) ... Setting up libx11-6:arm64 (2:1.8.4-2) ... Setting up libharfbuzz0b:arm64 (6.0.0+dfsg-3) ... Setting up libgdk-pixbuf-2.0-0:arm64 (2.42.10+dfsg-1+b1) ... Setting up libhwloc-dev:arm64 (2.9.0-1) ... Setting up libsnappy-java (1.1.8.3-1) ... Setting up libfontconfig1:arm64 (2.14.1-4) ... Setting up libcommons-configuration-java (1.10-6) ... Setting up libwagon-file-java (3.5.3-1) ... Setting up libxml2-utils (2.9.14+dfsg-1.2) ... Setting up libcommons-codec-java (1.15-1) ... Setting up libxcomposite1:arm64 (1:0.4.5-1) ... Setting up libavahi-client3:arm64 (0.8-10) ... Setting up libio-socket-ssl-perl (2.081-2) ... Setting up gpg (2.2.40-1.1) ... Setting up gnupg-utils (2.2.40-1.1) ... Setting up libhttp-message-perl (6.44-1) ... Setting up libdrm-amdgpu1:arm64 (2.4.114-1+b1) ... Setting up libxcb-dri3-0:arm64 (1.15-1) ... Setting up gtk-update-icon-cache (3.24.37-2pureos3) ... Setting up libcurlpp0:arm64 (0.8.1-5.1) ... Setting up libx11-xcb1:arm64 (2:1.8.4-2) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up velocity (1.7-6) ... Setting up libibverbs1:arm64 (44.0-2) ... Setting up fontconfig (2.14.1-4) ... Regenerating fonts cache... done. Setting up libdrm-nouveau2:arm64 (2.4.114-1+b1) ... Setting up libxdamage1:arm64 (1:1.1.6-1) ... Setting up gpg-agent (2.2.40-1.1) ... Setting up libxrender1:arm64 (1:0.9.10-1.1) ... Setting up libcommons-compress-java (1.22-1) ... Setting up ibverbs-providers:arm64 (44.0-2) ... Setting up libhttp-cookies-perl (6.10-1) ... Setting up libcommons-io-java (2.11.0-2) ... Setting up libdrm-radeon1:arm64 (2.4.114-1+b1) ... Setting up libcommons-digester-java (1.8.1-5) ... Setting up openssh-client (1:9.2p1-2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libpython3.11-stdlib:arm64 (3.11.2-6) ... Setting up libparams-classify-perl:arm64 (0.015-2+b1) ... Setting up gpgsm (2.2.40-1.1) ... Setting up libpango-1.0-0:arm64 (1.50.12+ds-1) ... Setting up libgl1-mesa-dri:arm64 (22.3.6-1+deb12u1) ... Setting up libxext6:arm64 (2:1.3.4-1+b1) ... Setting up libxmlgraphics-commons-java (2.8-2) ... Setting up libspdlog-dev:arm64 (1:1.10.0+ds-0.4) ... Setting up man-db (2.11.2-2) ... Building database of manual pages ... Setting up libcairo2:arm64 (1.16.0-7) ... Setting up libxxf86vm1:arm64 (1:1.1.4-1+b2) ... Setting up libxnvctrl0:arm64 (525.85.05-1) ... Setting up libnl-route-3-dev:arm64 (3.7.0-0.2+b1) ... Setting up dirmngr (2.2.40-1.1) ... Setting up libmaven-filtering-java (3.3.0-1) ... Setting up libmaven-resolver-java (1.6.3-1) ... Setting up adwaita-icon-theme (43-1) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libmodule-runtime-perl (0.016-2) ... Setting up libxfixes3:arm64 (1:6.0.0-2) ... Setting up libcurl4-openssl-dev:arm64 (7.88.1-10) ... Setting up libxinerama1:arm64 (2:1.1.4-3) ... Setting up libxrandr2:arm64 (2:1.5.2-2+b1) ... Setting up libcurlpp-dev:arm64 (0.8.1-5.1) ... Setting up gpg-wks-server (2.2.40-1.1) ... Setting up libcups2:arm64 (2.4.2-3) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up cmake (3.25.1-1) ... Setting up libmaven-shared-utils-java (3.3.4-1) ... Setting up libpangoft2-1.0-0:arm64 (1.50.12+ds-1) ... Setting up libmaven-resources-plugin-java (3.3.0-1) ... Setting up libpangocairo-1.0-0:arm64 (1.50.12+ds-1) ... Setting up libpython3-stdlib:arm64 (3.11.2-1+b1) ... Setting up librdmacm1:arm64 (44.0-2) ... Setting up python3.11 (3.11.2-6) ... Setting up libucx0:arm64 (1.13.1-1) ... Setting up libplexus-io-java (3.3.1-2) ... Setting up libglx-mesa0:arm64 (22.3.6-1+deb12u1) ... Setting up libxi6:arm64 (2:1.8-1+b1) ... Setting up gpg-wks-client (2.2.40-1.1) ... Setting up libglx0:arm64 (1.6.0-1) ... Setting up libcommons-validator-java (1:1.7-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libxtst6:arm64 (2:1.2.3-1.1) ... Setting up libbatik-java (1.16+dfsg-1) ... Setting up libmoo-perl (2.005005-1) ... Setting up libxcursor1:arm64 (1:1.2.1-1) ... Setting up debhelper (13.11.4) ... Setting up python3 (3.11.2-1+b1) ... Setting up libibverbs-dev:arm64 (44.0-2) ... Setting up libhwloc-plugins:arm64 (2.9.0-1) ... Setting up libgl1:arm64 (1.6.0-1) ... Setting up libmaven-clean-plugin-java (3.2.0-2) ... Setting up gnupg (2.2.40-1.1) ... Setting up libplexus-archiver-java (4.6.1-1) ... Setting up libfabric1:arm64 (1.17.0-3) ... Setting up libfop-java (1:2.8-2) ... Setting up libpmix2:arm64 (4.2.2-1+b1) ... Setting up libgtk2.0-0:arm64 (2.24.33-2) ... Setting up libopenmpi3:arm64 (4.1.4-3+b1) ... Setting up libmaven-archiver-java (3.6.0-1) ... Setting up libpmix-dev:arm64 (4.2.2-1+b1) ... Setting up openmpi-bin (4.1.4-3+b1) ... update-alternatives: using /usr/bin/mpirun.openmpi to provide /usr/bin/mpirun (mpirun) in auto mode update-alternatives: using /usr/bin/mpicc.openmpi to provide /usr/bin/mpicc (mpi) in auto mode Setting up libopenmpi-dev:arm64 (4.1.4-3+b1) ... 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 liberror-prone-java (2.18.0-1) ... Setting up default-jre-headless (2:1.17-74) ... Setting up libwww-perl (6.68-1) ... Setting up maven-repo-helper (1.11) ... Setting up devscripts (2.23.4) ... Setting up libguava-java (31.1-1) ... Setting up ant (1.10.13-1) ... Setting up openjdk-17-jre-headless:arm64 (17.0.6+10-1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up javahelper (0.78) ... Setting up ca-certificates-java (20230103) ... 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:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068_2.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: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:E-Tugra_Certification_Authority.pem Adding debian:E-Tugra_Global_Root_CA_ECC_v3.pem Adding debian:E-Tugra_Global_Root_CA_RSA_v3.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: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_1.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:SZAFIR_ROOT_CA2.pem Adding debian:SecureSign_RootCA11.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:Security_Communication_Root_CA.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_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustCor_ECA-1.pem Adding debian:TrustCor_RootCert_CA-1.pem Adding debian:TrustCor_RootCert_CA-2.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 libplexus-container-default-java (2.1.1-1) ... Setting up junit4 (4.13.2-3) ... Setting up liblwp-protocol-https-perl (6.10-1) ... Setting up openjdk-17-jre:arm64 (17.0.6+10-1) ... Setting up default-jre (2:1.17-74) ... Setting up libguice-java (4.2.3-2) ... Setting up openjdk-17-jdk-headless:arm64 (17.0.6+10-1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode 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 (1.2-3.1) ... Setting up junit5 (5.9.2-1) ... Setting up libmaven3-core-java (3.8.7-1) ... Setting up libmaven-shared-incremental-java (1.1-3) ... Setting up libmaven-shared-io-java (3.0.0-4) ... Setting up libplexus-bsh-factory-java (1.0~alpha7-5) ... Setting up maven (3.8.7-1) ... update-alternatives: using /usr/share/maven/bin/mvn to provide /usr/bin/mvn (mvn) in auto mode Setting up openjdk-17-jdk:arm64 (17.0.6+10-1) ... update-alternatives: using /usr/lib/jvm/java-17-openjdk-arm64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up libplexus-ant-factory-java (1.0~alpha2.1-4) ... Setting up default-jdk-headless (2:1.17-74) ... Setting up libplexus-compiler-java (2.12.1-1) ... Setting up libmaven-compiler-plugin-java (3.10.1-2) ... Setting up libmaven-file-management-java (3.0.0-1) ... Setting up default-jdk (2:1.17-74) ... Setting up libmaven-jar-plugin-java (3.3.0-2) ... Setting up libcommons-text-java (1.10.0-1) ... Setting up libdoxia-core-java (1.12.0-1) ... Setting up libdoxia-java (1.12.0-1) ... Setting up libmaven-reporting-api-java (3.1.1-1) ... Setting up libmaven-reporting-exec-java (1.6.0-1) ... Processing triggers for libc-bin (2.36-9) ... Processing triggers for sgml-base (1.31) ... Setting up libvelocity-tools-java (2.0-8) ... Setting up libdoxia-sitetools-java (1.11.1-1) ... Setting up libmaven-site-plugin-java (3.12.1-2) ... Setting up libmaven-reporting-impl-java (3.2.0-2) ... Setting up libmaven-plugin-tools-java (3.7.1-1) ... Setting up libsurefire-java (2.22.3-2) ... Setting up maven-debian-helper (2.6.3) ... ┌───────────────┐ │ Build │ └───────────────┘ dpkg-buildpackage: info: source package genomicsdb dpkg-buildpackage: info: source version 1.4.4-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: host architecture arm64  dpkg-source --before-build .  debian/rules clean dh clean --buildsystem=cmake --with javahelper debian/rules override_dh_auto_clean make[1]: Entering directory '/srv/build/genomicsdb-1.4.4' # 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 '/srv/build/genomicsdb-1.4.4' dh_autoreconf_clean -O--buildsystem=cmake jh_clean -O--buildsystem=cmake dh_clean -O--buildsystem=cmake  debian/rules binary-arch dh binary-arch --buildsystem=cmake --with javahelper dh_update_autotools_config -a -O--buildsystem=cmake dh_autoreconf -a -O--buildsystem=cmake debian/rules override_dh_auto_configure-arch make[1]: Entering directory '/srv/build/genomicsdb-1.4.4' # 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 \ -DVERSION=1.4.4 \ -DSOVERSION=0 cd obj-aarch64-linux-gnu && 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 -DVERSION=1.4.4 -DSOVERSION=0 .. -- The C compiler identification is GNU 12.2.0 -- The CXX compiler identification is GNU 12.2.0 -- 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: /lib64/libcurl.so (found version "7.88.1") -- 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 "5.4.1") -- Found ZLIB: /usr/lib/aarch64-linux-gnu/libz.so (found version "1.2.13") -- Found libuuid: /usr/include -- Found OpenSSL: /usr/lib/aarch64-linux-gnu/libcrypto.so (found version "3.0.9") -- 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 -- Performing Test CXX_2011_FOUND -- Performing Test CXX_2011_FOUND - Success -- Compiler supports C++ 2011. -- The TileDB library is compiled with verbosity. -- 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_cxx.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) -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR FETCHCONTENT_FULLY_DISCONNECTED  -- Build files have been written to: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu make[1]: Leaving directory '/srv/build/genomicsdb-1.4.4' jh_linkjars -a -O--buildsystem=cmake debian/rules override_dh_auto_build-arch make[1]: Entering directory '/srv/build/genomicsdb-1.4.4' dh_auto_build cd obj-aarch64-linux-gnu && make -j16 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/cmake -S/srv/build/genomicsdb-1.4.4 -B/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/CMakeFiles /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/CMakeFiles/protobuf_ep.dir/DependInfo.cmake --color= make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/DependInfo.cmake --color= make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make -f CMakeFiles/protobuf_ep.dir/build.make CMakeFiles/protobuf_ep.dir/build make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make -f genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build.make genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/build make -f genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build.make genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/build make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Nothing to be done for 'CMakeFiles/protobuf_ep.dir/build'. make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 1%] Built target protobuf_ep [ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kstring.c.o [ 1%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o [ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o [ 1%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o [ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o [ 2%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bcf_sr_sort.c.o [ 2%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o [ 3%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o [ 3%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o [ 3%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o [ 4%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o [ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o [ 4%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o [ 4%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/kstring.c cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/array/array.cc cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/kfunc.c.o -MF CMakeFiles/genomicsdb-hts.dir/kfunc.c.o.d -o CMakeFiles/genomicsdb-hts.dir/kfunc.c.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/kfunc.c cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/array/array_iterator.cc cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -MF CMakeFiles/genomicsdb-hts.dir/knetfile.c.o.d -o CMakeFiles/genomicsdb-hts.dir/knetfile.c.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/knetfile.c make -f src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/build.make src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/depend cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/bcf_sr_sort.c cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/array/array_read_state.cc cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -MF CMakeFiles/genomicsdb-hts.dir/bgzf.c.o.d -o CMakeFiles/genomicsdb-hts.dir/bgzf.c.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/bgzf.c cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/array/array_schema.cc [ 4%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/header.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/errmod.c.o -MF CMakeFiles/genomicsdb-hts.dir/errmod.c.o.d -o CMakeFiles/genomicsdb-hts.dir/errmod.c.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/errmod.c cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/array/array_sorted_read_state.cc cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-stcd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/faidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/faidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/faidx.c.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/faidx.c rong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/array/array_sorted_write_state.cc cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/c_api/tiledb.cc make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/header.c cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/src/resources /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources/CMakeFiles/PROTOBUF_GENERATED_CXX_TARGET.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 4%] Generating source/header files from .proto files cd /srv/build/genomicsdb-1.4.4/src/resources && /usr/bin/protoc --cpp_out=/srv/build/genomicsdb-1.4.4/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 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 5%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/c_api/tiledb_utils.cc [ 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/src/main /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/GenomicsDB_library_object_files.dir/DependInfo.cmake --color= [ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/hfile.c make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 6%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/query_operations/variant_operations.cc [ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_libcurl.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/hfile_libcurl.c [ 6%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/hfile_libcurl.c: In function ‘libcurl_open’: /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/hfile_libcurl.c:1335:9: warning: ‘CURLINFO_CONTENT_LENGTH_DOWNLOAD’ is deprecated: since 7.55.0. Use CURLINFO_CONTENT_LENGTH_DOWNLOAD_T []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 1335 | if (curl_easy_getinfo(fp->easy, CURLINFO_CONTENT_LENGTH_DOWNLOAD, | ^~ In file included from /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/hfile_libcurl.c:47: /usr/include/aarch64-linux-gnu/curl/curl.h:2858:3: note: declared here 2858 | CURLINFO_CONTENT_LENGTH_DOWNLOAD | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 6%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/query_operations/variant_operations_columnar.cc [ 6%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hfile_net.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/hfile_net.c /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/c_api/tiledb_utils.cc: In function ‘void TileDBUtils::print_md5_hash(unsigned char*, size_t)’: /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/c_api/tiledb_utils.cc:330:6: warning: ‘unsigned char* TileDBUtils::MD5(const unsigned char*, size_t, unsigned char*)’ is deprecated: Since OpenSSL 3.0 []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 330 | MD5(buffer, length, md); | ~~~^~~~~~~~~~~~~~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/c_api/tiledb_utils.cc:327: /usr/include/openssl/md5.h:52:38: note: declared here 52 | OSSL_DEPRECATEDIN_3_0 unsigned char *MD5(const unsigned char *d, size_t n, | ^~~ [ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/hts.c [ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/hts_os.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/hts_os.c [ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/md5.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/md5.c [ 7%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/multipart.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/multipart.c [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/probaln.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/probaln.c [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/realn.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/realn.c [ 8%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -MD -MT genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/regidx.c.o -MF CMakeFiles/genomicsdb-hts.dir/regidx.c.o.d -o CMakeFiles/genomicsdb-hts.dir/regidx.c.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/regidx.c [ 9%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/region.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/region.c [ 9%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/sam.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/sam.c [ 9%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/synced_bcf_reader.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/synced_bcf_reader.c In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/query_operations/variant_operations.cc:23: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/gt_common.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/query_operations/broad_combined_gvcf.cc:24: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/gt_common.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf_sweep.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/vcf_sweep.c [ 10%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/codec.cc [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/textutils.c.o [ 10%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/tbx.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/tbx.c cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/textutils.c In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/query_operations/variant_operations_columnar.cc:23: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/gt_common.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/12/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/thread_pool.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/thread_pool.c [ 11%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcf.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/vcf.c [ 11%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/codec_blosc.cc [ 12%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/codec_filter.cc [ 12%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/vcfutils.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/vcfutils.c [ 13%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_codecs.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/cram_codecs.c [ 13%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/codec_filter_bit_shuffle.cc [ 14%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc [ 14%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_decode.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/cram_decode.c [ 14%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_encode.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/cram_encode.c [ 14%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/codec_filter_delta_encode.cc [ 15%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_external.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/cram_external.c [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/codec_gzip.cc [ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_index.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/cram_index.c [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/codec_lz4.cc [ 16%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_io.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/cram_io.c In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/query_operations/broad_combined_gvcf_columnar.cc:23: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/gt_common.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 16%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/codec_rle.cc [ 17%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/codec_zstd.cc [ 17%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle/bitshuffle_core.c [ 17%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle/iochain.c [ 18%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/expressions/expression.cc [ 19%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_samtools.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/cram_samtools.c [ 19%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/fragment/book_keeping.cc [ 19%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/cram_stats.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/cram_stats.c [ 19%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/fragment/fragment.cc [ 19%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/mFILE.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/mFILE.c [ 20%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/fragment/read_state.cc [ 21%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/open_trace_file.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/open_trace_file.c [ 21%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/pooled_alloc.c.o [ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/write_state.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/pooled_alloc.c cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/fragment/write_state.cc [ 21%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/rANS_static.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/rANS_static.c [ 21%] Building C object genomicsdb-htslib/CMakeFiles/genomicsdb-hts.dir/cram/string_alloc.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cc -DVCF_ALLOW_INT64=1 -Dgenomicsdb_hts_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/genomicsdb-htslib/cram/string_alloc.c [ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/metadata/metadata.cc [ 21%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/metadata/metadata_iterator.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/metadata/metadata_iterator.cc [ 22%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/error.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/misc/error.cc [ 22%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/hilbert_curve.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/misc/hilbert_curve.cc [ 22%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/mem_utils.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/misc/mem_utils.cc [ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/progress_bar.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/misc/progress_bar.cc [ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/uri.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/misc/uri.cc [ 23%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/misc/utils.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/misc/utils.cc [ 24%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_buffer.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_buffer.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_buffer.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_buffer.cc.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/storage_manager/storage_buffer.cc [ 25%] Linking C shared library libgenomicsdb-hts.so cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdb-hts.dir/link.txt --verbose=1 /usr/bin/cc -fPIC -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -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 /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/liblzma.so make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/metadata/metadata.cc: In member function ‘int Metadata::read(const char*, void**, size_t*)’: /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/metadata/metadata.cc:105:6: warning: ‘unsigned char* MD5(const unsigned char*, size_t, unsigned char*)’ is deprecated: Since OpenSSL 3.0 []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 105 | MD5((const unsigned char*) key, strlen(key)+1, (unsigned char*) coords); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/metadata/metadata.cc:36: /usr/include/openssl/md5.h:52:38: note: declared here 52 | OSSL_DEPRECATEDIN_3_0 unsigned char *MD5(const unsigned char *d, size_t n, | ^~~ [ 25%] Built target genomicsdb-hts /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/metadata/metadata.cc: In member function ‘void Metadata::compute_array_coords(const char*, size_t, void*&, size_t&) const’: /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/metadata/metadata.cc:418:8: warning: ‘unsigned char* MD5(const unsigned char*, size_t, unsigned char*)’ is deprecated: Since OpenSSL 3.0 []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 418 | MD5(keys_c, key_size, coords_c); | ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /usr/include/openssl/md5.h:52:38: note: declared here 52 | OSSL_DEPRECATEDIN_3_0 unsigned char *MD5(const unsigned char *d, size_t n, | ^~~ [ 25%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_fs.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_fs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_fs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_fs.cc.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/storage_manager/storage_fs.cc [ 25%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_manager.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_manager.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_manager.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_manager.cc.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/storage_manager/storage_manager.cc [ 26%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_manager_config.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_manager_config.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_manager_config.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_manager_config.cc.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/storage_manager/storage_manager_config.cc [ 26%] Building CXX object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_posixfs.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/lz4 -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -fPIC -MD -MT genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_posixfs.cc.o -MF CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_posixfs.cc.o.d -o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_posixfs.cc.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/storage_manager/storage_posixfs.cc [ 26%] Building C object genomicsdb-tiledb/core/CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cc -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/storage_manager -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/src/codec/external/bitshuffle -I/srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_field_data.cc [ 27%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_array_schema.cc [ 28%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_cell.cc:23: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_storage_manager.cc:24: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_field_data.cc:23: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/memory:63, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:25: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/gt_remapper.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/gt_remapper_template_definition.h:25, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_array_schema.cc:25: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_array_schema.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_array_schema.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc:23: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/gt_common.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/12/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.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant.cc /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc: In instantiation of ‘bool VariantFieldHandler::concatenate_field(const Variant&, const VariantQueryConfig&, unsigned int, const void**, unsigned int&) [with DataType = std::__cxx11::basic_string; CombineResultType = std::__cxx11::basic_string]’: /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc:973:16: required from here /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:56:54: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of type ‘__gnu_cxx::__alloc_traits >, std::__cxx11::basic_string >::value_type’ {aka ‘class std::__cxx11::basic_string’} with no trivial copy-assignment; use copy-assignment or copy-initialization instead []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wclass-memaccess-Wclass-memaccess]8;;] 56 | #define memcpy_s(dst, dst_size, src, src_size) memcpy((dst), (src), (src_size)) | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc:724:7: note: in expansion of macro ‘memcpy_s’ 724 | memcpy_s(&(m_concatenation_result[curr_result_size]), vec.size()*sizeof(DataType), &(vec[0]), | ^~~~~~~~ In file included from /usr/include/c++/12/string:53: /usr/include/c++/12/bits/basic_string.h:85:11: note: ‘__gnu_cxx::__alloc_traits >, std::__cxx11::basic_string >::value_type’ {aka ‘class std::__cxx11::basic_string’} declared here 85 | class basic_string | ^~~~~~~~~~~~ /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc: In instantiation of ‘bool VariantFieldHandler::collect_and_extend_fields(const Variant&, const VariantQueryConfig&, unsigned int, const void**, uint64_t&, bool, bool, bool) [with DataType = std::__cxx11::basic_string; CombineResultType = std::__cxx11::basic_string; uint64_t = long unsigned int]’: /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc:973:16: required from here /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:56:54: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of type ‘__gnu_cxx::__alloc_traits >, std::__cxx11::basic_string >::value_type’ {aka ‘class std::__cxx11::basic_string’} with no trivial copy-assignment; use copy-assignment or copy-initialization instead []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wclass-memaccess-Wclass-memaccess]8;;] 56 | #define memcpy_s(dst, dst_size, src, src_size) memcpy((dst), (src), (src_size)) | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant_field_handler.cc:797:7: note: in expansion of macro ‘memcpy_s’ 797 | memcpy_s(&(m_extended_field_vector[extended_field_vector_idx]), field_ptr->length()*sizeof(DataType), | ^~~~~~~~ /usr/include/c++/12/bits/basic_string.h:85:11: note: ‘__gnu_cxx::__alloc_traits >, std::__cxx11::basic_string >::value_type’ {aka ‘class std::__cxx11::basic_string’} declared here 85 | class basic_string | ^~~~~~~~~~~~ [ 28%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/variant.cc:23: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/gt_common.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:27: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/loader/tiledb_loader_text_file.cc [ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/loader/load_operators.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/query_variants.cc:24: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/gt_common.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/query_variants.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 30%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/loader/genomicsdb_importer.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/genomicsdb_columnar_field.cc:23: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/genomicsdb_iterators.cc:24: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 30%] 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_static.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 30%] Linking CXX static library libgenomicsdb-tiledb.a cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -P CMakeFiles/tiledb_static.dir/cmake_clean_target.cmake In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:24: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/vid_mapper.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_static.dir/link.txt --verbose=1 /usr/bin/ar qc libgenomicsdb-tiledb.a CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_iterator.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_read_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_schema.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_read_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/array/array_sorted_write_state.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/c_api/tiledb_utils.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_blosc.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_bit_shuffle.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_filter_delta_encode.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_gzip.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_lz4.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_rle.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/codec_zstd.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/bitshuffle_core.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/bitshuffle/iochain.c.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/expressions/expression.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/book_keeping.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/fragment.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/fragment/read_state.cc.o 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_manager/storage_buffer.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_fs.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_manager.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_manager_config.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_posixfs.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o /usr/bin/ranlib libgenomicsdb-tiledb.a In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/load_operators.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/loader/load_operators.cc:24: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/vid_mapper.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/load_operators.h:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 30%] 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core/CMakeFiles/tiledb_shared.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 31%] Linking CXX shared library libgenomicsdb-tiledb.so cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_shared.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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_manager/storage_buffer.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_fs.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_manager.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_manager_config.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/storage_manager/storage_posixfs.cc.o CMakeFiles/TILEDB_CORE_OBJECTS.dir/src/codec/external/lz4/lz4.c.o /usr/lib/aarch64-linux-gnu/libz.so /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 31%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema.dir/src/array/test_array_schema.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/array/test_array_schema.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/loader/tiledb_loader_text_file.cc:32: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/gt_common.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/tiledb_loader_file_base.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/tiledb_loader_text_file.h:33, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/loader/tiledb_loader_text_file.cc:30: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/load_operators.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/tiledb_loader.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/genomicsdb_importer.h:25, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/loader/genomicsdb_importer.cc:23: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/vid_mapper.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/tiledb_loader.h:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 32%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/memory_measure.cc [ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/histogram.cc [ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/vid_mapper_pb.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/load_operators.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/tiledb_loader.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/loader/tiledb_loader.cc:23: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/vid_mapper.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/tiledb_loader.h:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/lut.cc [ 33%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/known_field_info.cc [ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/vid_mapper.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/known_field_info.cc:27: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/gt_common.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf/known_field_info.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/known_field_info.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/vid_mapper_sql.cc [ 34%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/timer.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/vid_mapper.cc:33: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/vid_mapper.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/vid_mapper.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/genomicsdb_logger.cc [ 35%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 36%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_array_schema.dir/src/benchmark/test_print_array_schema.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/benchmark/test_print_array_schema.cc [ 36%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/vcf/vcf_adapter.cc [ 36%] Linking CXX executable test_print_array_schema cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 36%] 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 36%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_print_book_keeping.dir/src/benchmark/test_print_book_keeping.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/benchmark/test_print_book_keeping.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc:24: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/alleles_combiner.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/alleles_combiner_template_definition.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc:23: /usr/include/c++/12/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/genomicsdb_bcf_generator.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc [ 38%] Linking CXX executable test_print_book_keeping cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 38%] 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 39%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/benchmark/test_sparse_array_benchmark.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/vcf/genomicsdb_bcf_generator.cc:23: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 39%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/vcf/vcf2binary.cc [ 39%] Building C object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/cc -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/vcf/hfile_genomicsdb.c [ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/vcf/htslib_fs_adapter.cc [ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/config/variant_query_config.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/vcf/vcf2binary.cc:29: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf/vcf2binary.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/vcf/vcf2binary.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 40%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/config/genomicsdb_config_base.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 41%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc [ 42%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/config/json_config.cc /srv/build/genomicsdb-1.4.4/src/main/cpp/src/vcf/htslib_fs_adapter.cc: In function ‘void* genomicsdb_filesystem_init(const char*, int)’: /srv/build/genomicsdb-1.4.4/src/main/cpp/src/vcf/htslib_fs_adapter.cc:81:13: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘TileDB_Config’ {aka ‘struct TileDB_Config’}; use assignment or value-initialization instead []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wclass-memaccess-Wclass-memaccess]8;;] 81 | memset(&tiledb_config, 0, sizeof(TileDB_Config)); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/vcf/htslib_fs_adapter.cc:26: /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api/tiledb.h:93:16: note: ‘TileDB_Config’ {aka ‘struct TileDB_Config’} declared here 93 | typedef struct TileDB_Config { | ^~~~~~~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/config/variant_query_config.cc:25: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/algorithm:60, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/config/variant_query_config.cc:23: /usr/include/c++/12/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/cpp/src/config/pb_config.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/config/pb_config.cc [ 42%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/annotation_service.cc [ 43%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb.cc [ 43%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb_field.cc [ 43%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb_plink.cc [ 44%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_coordinates.pb.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources/genomicsdb_coordinates.pb.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb.cc:39: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/api/genomicsdb_exception.h:37, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/api/genomicsdb.h:36, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb.cc:33: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 44%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_callsets_mapping.pb.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources/genomicsdb_callsets_mapping.pb.cc [ 44%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_export_config.pb.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources/genomicsdb_export_config.pb.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb_plink.cc:39: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/api/genomicsdb_exception.h:37, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/api/genomicsdb.h:36, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/api/genomicsdb_plink.h:35, from /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb_plink.cc:33: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 45%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_import_config.pb.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources/genomicsdb_import_config.pb.cc /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb_plink.cc: In member function ‘virtual void GenomicsDBPlinkProcessor::process(const std::string&, const int64_t*, const genomic_interval_t&, const std::vector&, bool)’: /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb_plink.cc:366:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wsign-compare-Wsign-compare]8;;] 366 | if(g < 0 || g >= vec.size()) { | ~~^~~~~~~~~~~~~ /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb_plink.cc: In member function ‘void GenomicsDBPlinkProcessor::advance_state()’: /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb_plink.cc:653:24: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wsign-compare-Wsign-compare]8;;] 653 | for(int i = 0; i < num_rows; i++) { | ~~^~~~~~~~~~ [ 45%] Building CXX object src/main/CMakeFiles/GenomicsDB_library_object_files.dir/__/resources/genomicsdb_vid_mapping.pb.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 45%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_dense_array_api.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/c_api/test_dense_array_api.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 45%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/c_api/test_sparse_array_api.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 45%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/expressions/test_expressions.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make -f genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/build make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 46%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 47%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_uri.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 47%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc [ 48%] Linking CXX executable test_array_schema cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 48%] Built target test_array_schema make -f genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 48%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -MD -MT genomicsdb-tiledb/test/CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -MF CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o.d -o CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/storage_manager/test_posixfs.cc make -f genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/build.make genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 48%] Building CXX object genomicsdb-tiledb/test/CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_TEST_DIR=\"/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test\" -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/benchmark -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2 -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/array -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/c_api -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/codec -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/expressions -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/fragment -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/metadata -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/misc -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/../core/include/storage_manager -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/storage_manager/test_storage_buffer.cc In file included from /usr/include/c++/12/string:40: In static member function ‘static constexpr void std::char_traits::assign(char_type&, const char_type&)’, inlined from ‘void std::__cxx11::basic_string<_CharT, _Traits, _Alloc>::push_back(_CharT) [with _CharT = char; _Traits = std::char_traits; _Alloc = std::allocator]’ at /usr/include/c++/12/bits/basic_string.h:1529:21, inlined from ‘GenomicsDBPlinkProcessor::process(const std::string&, const int64_t*, const genomic_interval_t&, const std::vector&, bool)::&, size_t)>’ at /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb_plink.cc:625:26, inlined from ‘constexpr _Res std::__invoke_impl(__invoke_other, _Fn&&, _Args&& ...) [with _Res = void; _Fn = GenomicsDBPlinkProcessor::process(const std::string&, const int64_t*, const genomic_interval_t&, const std::vector&, bool)::&, size_t)>&; _Args = {const vector >&, long unsigned int}]’ at /usr/include/c++/12/bits/invoke.h:61:36, inlined from ‘constexpr std::enable_if_t, _Res> std::__invoke_r(_Callable&&, _Args&& ...) [with _Res = void; _Callable = GenomicsDBPlinkProcessor::process(const std::string&, const int64_t*, const genomic_interval_t&, const std::vector&, bool)::&, size_t)>&; _Args = {const vector >&, long unsigned int}]’ at /usr/include/c++/12/bits/invoke.h:111:28, inlined from ‘static _Res std::_Function_handler<_Res(_ArgTypes ...), _Functor>::_M_invoke(const std::_Any_data&, _ArgTypes&& ...) [with _Res = void; _Functor = GenomicsDBPlinkProcessor::process(const std::string&, const int64_t*, const genomic_interval_t&, const std::vector&, bool)::&, size_t)>; _ArgTypes = {const std::vector >&, long unsigned int}]’ at /usr/include/c++/12/bits/std_function.h:290:30: /usr/include/c++/12/bits/char_traits.h:354:14: warning: ‘p’ may be used uninitialized []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wmaybe-uninitialized-Wmaybe-uninitialized]8;;] 354 | __c1 = __c2; | ~~~~~^~~~~~ /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb_plink.cc: In static member function ‘static _Res std::_Function_handler<_Res(_ArgTypes ...), _Functor>::_M_invoke(const std::_Any_data&, _ArgTypes&& ...) [with _Res = void; _Functor = GenomicsDBPlinkProcessor::process(const std::string&, const int64_t*, const genomic_interval_t&, const std::vector&, bool)::&, size_t)>; _ArgTypes = {const std::vector >&, long unsigned int}]’: /srv/build/genomicsdb-1.4.4/src/main/cpp/src/api/genomicsdb_plink.cc:606:12: note: ‘p’ was declared here 606 | char p; | ^ 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_read_dense.dir/src/tiledb_array_aio_read_dense.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_aio_read_dense.cc [ 49%] Linking CXX executable tiledb_array_aio_read_dense cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 49%] Built target tiledb_array_aio_read_dense 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 49%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_aio_write_dense.cc [ 50%] Linking CXX executable tiledb_array_aio_write_dense cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_aio_write_dense.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now CMakeFiles/tiledb_array_aio_write_dense.dir/src/tiledb_array_aio_write_dense.cc.o -o tiledb_array_aio_write_dense ../core/libgenomicsdb-tiledb.a /usr/lib/aarch64-linux-gnu/libz.so /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 50%] Built target GenomicsDB_library_object_files 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 50%] Built target tiledb_array_aio_write_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/depend [ 50%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/DependInfo.cmake --color= cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -MF CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o.d -o CMakeFiles/tiledb_array_consolidate.dir/src/tiledb_array_consolidate.cc.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_consolidate.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 51%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -MF CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o.d -o CMakeFiles/tiledb_array_create_dense.dir/src/tiledb_array_create_dense.cc.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_create_dense.cc [ 51%] Linking CXX executable tiledb_array_consolidate cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_consolidate.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 51%] Linking CXX executable tiledb_array_create_dense cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_dense.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 51%] Built target tiledb_array_consolidate 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 51%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_create_sparse.dir/src/tiledb_array_create_sparse.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_create_sparse.cc [ 51%] Built 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[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 51%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_dense.dir/src/tiledb_array_iterator_dense.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_iterator_dense.cc [ 52%] Linking CXX executable tiledb_array_create_sparse cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_create_sparse.dir/link.txt --verbose=1 [ 52%] Linking CXX executable tiledb_array_iterator_dense cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_dense.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 52%] Built target tiledb_array_create_sparse [ 52%] Built target tiledb_array_iterator_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 -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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/DependInfo.cmake --color= make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 53%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse_filter.dir/src/tiledb_array_iterator_sparse_filter.cc.o [ 53%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_iterator_sparse.dir/src/tiledb_array_iterator_sparse.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse.cc cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_iterator_sparse_filter.cc [ 54%] Linking CXX executable tiledb_array_iterator_sparse [ 54%] Linking CXX executable tiledb_array_iterator_sparse_filter cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_iterator_sparse.dir/link.txt --verbose=1 cd /srv/build/genomicsdb-1.4.4/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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 54%] Built target tiledb_array_iterator_sparse_filter make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/DependInfo.cmake --color= [ 54%] Built target tiledb_array_iterator_sparse 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 54%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_dense.dir/src/tiledb_array_parallel_consolidate_dense.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_dense.cc [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_consolidate_sparse.dir/src/tiledb_array_parallel_consolidate_sparse.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_consolidate_sparse.cc [ 55%] Linking CXX executable tiledb_array_parallel_consolidate_sparse [ 55%] Linking CXX executable tiledb_array_parallel_consolidate_dense cd /srv/build/genomicsdb-1.4.4/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 cd /srv/build/genomicsdb-1.4.4/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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 55%] Built target tiledb_array_parallel_consolidate_sparse [ 55%] Built target tiledb_array_parallel_consolidate_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/depend make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/DependInfo.cmake --color= make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 -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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_2.dir/src/tiledb_array_parallel_read_dense_2.cc.o [ 55%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_dense_1.dir/src/tiledb_array_parallel_read_dense_1.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_2.cc cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_dense_1.cc [ 55%] Linking CXX executable tiledb_array_parallel_read_dense_2 cd /srv/build/genomicsdb-1.4.4/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 [ 56%] Linking CXX executable tiledb_array_parallel_read_dense_1 cd /srv/build/genomicsdb-1.4.4/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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 56%] Built target tiledb_array_parallel_read_dense_2 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_mpi_io_dense.dir/DependInfo.cmake --color= [ 56%] Built target tiledb_array_parallel_read_dense_1 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 56%] 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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_mpi_io_dense.cc [ 56%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_1.dir/src/tiledb_array_parallel_read_sparse_1.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_1.cc [ 57%] Linking CXX executable tiledb_array_parallel_read_mpi_io_dense cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 57%] Linking CXX executable tiledb_array_parallel_read_sparse_1 cd /srv/build/genomicsdb-1.4.4/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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 57%] Built target tiledb_array_parallel_read_mpi_io_dense make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_read_sparse_2.dir/src/tiledb_array_parallel_read_sparse_2.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_read_sparse_2.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 58%] Built target tiledb_array_parallel_read_sparse_1 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 58%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_1.dir/src/tiledb_array_parallel_write_dense_1.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_1.cc [ 58%] Linking CXX executable tiledb_array_parallel_read_sparse_2 cd /srv/build/genomicsdb-1.4.4/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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 59%] Linking CXX executable tiledb_array_parallel_write_dense_1 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 59%] Built target tiledb_array_parallel_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 59%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_dense_2.dir/src/tiledb_array_parallel_write_dense_2.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_dense_2.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 59%] Built target tiledb_array_parallel_write_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 60%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_1.dir/src/tiledb_array_parallel_write_sparse_1.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_1.cc [ 60%] Linking CXX executable tiledb_array_parallel_write_dense_2 cd /srv/build/genomicsdb-1.4.4/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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 60%] Linking CXX executable tiledb_array_parallel_write_sparse_1 cd /srv/build/genomicsdb-1.4.4/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 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 60%] Built target tiledb_array_parallel_write_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 60%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_parallel_write_sparse_2.dir/src/tiledb_array_parallel_write_sparse_2.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_parallel_write_sparse_2.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 60%] Built target tiledb_array_parallel_write_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 60%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_primitive.dir/src/tiledb_array_primitive.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_primitive.cc [ 61%] Linking CXX executable tiledb_array_parallel_write_sparse_2 cd /srv/build/genomicsdb-1.4.4/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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 61%] Built target tiledb_array_parallel_write_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/DependInfo.cmake --color= [ 61%] Linking CXX executable tiledb_array_primitive cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_array_primitive.dir/link.txt --verbose=1 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_1.dir/src/tiledb_array_read_dense_1.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_1.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 62%] Built target tiledb_array_primitive 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 62%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_2.dir/src/tiledb_array_read_dense_2.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_2.cc [ 62%] Linking CXX executable tiledb_array_read_dense_1 cd /srv/build/genomicsdb-1.4.4/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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 62%] Linking CXX executable test_sparse_array_benchmark cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx /usr/bin/ld: CMakeFiles/test_sparse_array_benchmark.dir/src/benchmark/test_sparse_array_benchmark.cc.o: in function `TempDir::create_temp_directory()': ./obj-aarch64-linux-gnu/genomicsdb-tiledb/test/./genomicsdb-tiledb/test/include/catch2/catch.h:99: warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 62%] Built target tiledb_array_read_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/DependInfo.cmake --color= [ 63%] Linking CXX executable tiledb_array_read_dense_2 cd /srv/build/genomicsdb-1.4.4/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 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_3.dir/src/tiledb_array_read_dense_3.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_3.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 63%] Built target test_sparse_array_benchmark 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_dense_sorted.dir/src/tiledb_array_read_dense_sorted.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_read_dense_sorted.cc [ 63%] Built target tiledb_array_read_dense_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/DependInfo.cmake --color= [ 63%] Linking CXX executable tiledb_array_read_dense_3 cd /srv/build/genomicsdb-1.4.4/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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 63%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_1.dir/src/tiledb_array_read_sparse_1.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_1.cc [ 64%] Linking CXX executable tiledb_array_read_dense_sorted cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 64%] Built target tiledb_array_read_dense_3 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/DependInfo.cmake --color= [ 64%] Linking CXX executable tiledb_array_read_sparse_1 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 cd /srv/build/genomicsdb-1.4.4/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 make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 65%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_2.dir/src/tiledb_array_read_sparse_2.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_2.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 65%] Built target tiledb_array_read_dense_sorted 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 65%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_1.dir/src/tiledb_array_read_sparse_filter_1.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_1.cc [ 65%] Built target tiledb_array_read_sparse_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/DependInfo.cmake --color= [ 65%] Linking CXX executable tiledb_array_read_sparse_2 cd /srv/build/genomicsdb-1.4.4/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 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 65%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_filter_2.dir/src/tiledb_array_read_sparse_filter_2.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_filter_2.cc [ 66%] Linking CXX executable tiledb_array_read_sparse_filter_1 cd /srv/build/genomicsdb-1.4.4/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 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 66%] Built target tiledb_array_read_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/DependInfo.cmake --color= [ 66%] Linking CXX executable tiledb_array_read_sparse_filter_2 cd /srv/build/genomicsdb-1.4.4/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 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_read_sparse_sorted.dir/src/tiledb_array_read_sparse_sorted.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_read_sparse_sorted.cc [ 67%] Linking CXX executable test_array_iterator cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_iterator.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx /usr/bin/ld: make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 67%] Built target tiledb_array_read_sparse_filter_1 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' CMakeFiles/test_array_iterator.dir/src/c_api/test_array_iterator.cc.o: in function `TempDir::create_temp_directory()': ./obj-aarch64-linux-gnu/genomicsdb-tiledb/test/./genomicsdb-tiledb/test/include/catch2/catch.h:99: warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_1.dir/src/tiledb_array_update_dense_1.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_1.cc [ 67%] Linking CXX executable tiledb_array_read_sparse_sorted [ 67%] Built target tiledb_array_read_sparse_filter_2 cd /srv/build/genomicsdb-1.4.4/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 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/DependInfo.cmake --color= /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 67%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_dense_2.dir/src/tiledb_array_update_dense_2.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_update_dense_2.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 67%] Built target test_array_iterator [ 67%] Built target tiledb_array_read_sparse_sorted 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[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/DependInfo.cmake --color= make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/DependInfo.cmake --color= [ 68%] Linking CXX executable tiledb_array_update_dense_1 cd /srv/build/genomicsdb-1.4.4/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 [ 68%] Linking CXX executable tiledb_array_update_dense_2 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 cd /srv/build/genomicsdb-1.4.4/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 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 69%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_1.dir/src/tiledb_array_update_sparse_1.cc.o [ 69%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_update_sparse_2.dir/src/tiledb_array_update_sparse_2.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_1.cc cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_update_sparse_2.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 70%] Linking CXX executable tiledb_array_update_sparse_2 cd /srv/build/genomicsdb-1.4.4/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 [ 70%] Built target tiledb_array_update_dense_2 [ 70%] Built target tiledb_array_update_dense_1 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/depend make -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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/DependInfo.cmake --color= make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/DependInfo.cmake --color= /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 70%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_1.dir/src/tiledb_array_write_dense_1.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc [ 71%] Linking CXX executable tiledb_array_update_sparse_1 [ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_2.dir/src/tiledb_array_write_dense_2.cc.o cd /srv/build/genomicsdb-1.4.4/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 cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_2.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 71%] Built target tiledb_array_update_sparse_2 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 71%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_dense_sorted.dir/src/tiledb_array_write_dense_sorted.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_write_dense_sorted.cc [ 71%] Built target tiledb_array_update_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 make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/DependInfo.cmake --color= [ 71%] Linking CXX executable tiledb_array_write_dense_1 cd /srv/build/genomicsdb-1.4.4/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 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 71%] Linking CXX executable tiledb_array_write_dense_2 cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_1.dir/src/tiledb_array_write_sparse_1.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_1.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 72%] Built target tiledb_array_write_dense_1 [ 72%] Linking CXX executable tiledb_array_write_dense_sorted make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/depend cd /srv/build/genomicsdb-1.4.4/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 make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/DependInfo.cmake --color= [ 72%] Built target tiledb_array_write_dense_2 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/DependInfo.cmake --color= /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 [ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_2.dir/src/tiledb_array_write_sparse_2.cc.o make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_2.cc [ 72%] Linking CXX executable tiledb_array_write_sparse_1 cd /srv/build/genomicsdb-1.4.4/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 [ 72%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_3.dir/src/tiledb_array_write_sparse_3.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_3.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 72%] Built target tiledb_array_write_dense_sorted make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 72%] Linking CXX executable tiledb_array_write_sparse_3 cd /srv/build/genomicsdb-1.4.4/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 [ 72%] Built target tiledb_array_write_sparse_1 [ 73%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_array_write_sparse_4.dir/src/tiledb_array_write_sparse_4.cc.o make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/depend cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_array_write_sparse_4.cc make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/DependInfo.cmake --color= /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 74%] Linking CXX executable tiledb_array_write_sparse_2 cd /srv/build/genomicsdb-1.4.4/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 [ 74%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_catching_errors.dir/src/tiledb_catching_errors.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_catching_errors.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 74%] Linking CXX executable tiledb_array_write_sparse_4 cd /srv/build/genomicsdb-1.4.4/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 [ 74%] Built target tiledb_array_write_sparse_3 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/DependInfo.cmake --color= /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 [ 75%] Linking CXX executable tiledb_catching_errors make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_catching_errors.dir/link.txt --verbose=1 [ 75%] Built target tiledb_array_write_sparse_2 [ 75%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_clear_delete_move.dir/src/tiledb_clear_delete_move.cc.o make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/depend /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_clear_delete_move.cc make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_config.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 76%] Built target tiledb_array_write_sparse_4 make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/DependInfo.cmake --color= [ 76%] Linking CXX executable tiledb_clear_delete_move make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_clear_delete_move.dir/link.txt --verbose=1 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 76%] Built target tiledb_catching_errors make -f genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/build.make genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/DependInfo.cmake --color= [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_delete.cc [ 76%] Linking CXX executable tiledb_config cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_config.dir/link.txt --verbose=1 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now CMakeFiles/tiledb_config.dir/src/tiledb_config.cc.o -o tiledb_config ../core/libgenomicsdb-tiledb.a /usr/lib/aarch64-linux-gnu/libz.so /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 76%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_ls.cc In file included from /usr/include/string.h:535, from /usr/include/c++/12/cstring:42, from /usr/include/catch2/catch.hpp:5717, from /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/include/catch2/catch.h:37, from /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:38: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘void C_A_T_C_H_T_E_S_T_0()’ at /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:183:11: /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 []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wstringop-overread-Wstringop-overread]8;;] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 |  __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function ‘void C_A_T_C_H_T_E_S_T_0()’: /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:180:10: note: source object ‘j’ of size 8 180 | double j = 0.1, k = 0.2; | ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘void C_A_T_C_H_T_E_S_T_0()’ at /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:185:11: /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 []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wstringop-overread-Wstringop-overread]8;;] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 |  __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function ‘void C_A_T_C_H_T_E_S_T_0()’: /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:180:19: note: source object ‘k’ of size 8 180 | double j = 0.1, k = 0.2; | ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘void C_A_T_C_H_T_E_S_T_0()’ at /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:190:11: /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 []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wstringop-overread-Wstringop-overread]8;;] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 |  __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function ‘void C_A_T_C_H_T_E_S_T_0()’: /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:180:10: note: source object ‘j’ of size 8 180 | double j = 0.1, k = 0.2; | ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘void C_A_T_C_H_T_E_S_T_0()’ at /srv/build/genomicsdb-1.4.4/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 []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wstringop-overread-Wstringop-overread]8;;] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 |  __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function ‘void C_A_T_C_H_T_E_S_T_0()’: /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:180:19: note: source object ‘k’ of size 8 180 | double j = 0.1, k = 0.2; | ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘void C_A_T_C_H_T_E_S_T_0()’ at /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:195:11: /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 []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wstringop-overread-Wstringop-overread]8;;] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 |  __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function ‘void C_A_T_C_H_T_E_S_T_0()’: /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:180:10: note: source object ‘j’ of size 8 180 | double j = 0.1, k = 0.2; | ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘void C_A_T_C_H_T_E_S_T_0()’ at /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:197:11: /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 []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wstringop-overread-Wstringop-overread]8;;] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 |  __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc: In function ‘void C_A_T_C_H_T_E_S_T_0()’: /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/test/src/misc/test_utils.cc:180:19: note: source object ‘k’ of size 8 180 | double j = 0.1, k = 0.2; | ^ make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 76%] Built target tiledb_clear_delete_move 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 76%] Built target tiledb_config 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/DependInfo.cmake --color= [ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_ls_workspaces.dir/src/tiledb_ls_workspaces.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_ls_workspaces.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 77%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_consolidate.dir/src/tiledb_metadata_consolidate.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_metadata_consolidate.cc [ 77%] Linking CXX executable tiledb_ls cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now CMakeFiles/tiledb_ls.dir/src/tiledb_ls.cc.o -o tiledb_ls ../core/libgenomicsdb-tiledb.a /usr/lib/aarch64-linux-gnu/libz.so /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 78%] Linking CXX executable tiledb_delete cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_delete.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now CMakeFiles/tiledb_delete.dir/src/tiledb_delete.cc.o -o tiledb_delete ../core/libgenomicsdb-tiledb.a /usr/lib/aarch64-linux-gnu/libz.so /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 79%] Linking CXX executable tiledb_metadata_consolidate cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_consolidate.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 79%] Linking CXX executable tiledb_ls_workspaces cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_ls_workspaces.dir/link.txt --verbose=1 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 79%] Built target tiledb_ls 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 79%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_create.dir/src/tiledb_metadata_create.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_metadata_create.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 79%] Built target tiledb_delete 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 79%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_metadata_iterator.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 79%] Built target tiledb_metadata_consolidate 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 79%] Built target tiledb_ls_workspaces 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/DependInfo.cmake --color= [ 79%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_primitive.dir/src/tiledb_metadata_primitive.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_metadata_primitive.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 79%] Linking CXX executable tiledb_metadata_create cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_create.dir/link.txt --verbose=1 [ 80%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_read.dir/src/tiledb_metadata_read.cc.o /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_metadata_read.cc [ 81%] Linking CXX executable tiledb_metadata_iterator cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now CMakeFiles/tiledb_metadata_iterator.dir/src/tiledb_metadata_iterator.cc.o -o tiledb_metadata_iterator ../core/libgenomicsdb-tiledb.a /usr/lib/aarch64-linux-gnu/libz.so /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 81%] Linking CXX executable tiledb_metadata_primitive cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_primitive.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 81%] Linking CXX executable tiledb_metadata_read cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_read.dir/link.txt --verbose=1 [ 81%] Built target tiledb_metadata_create 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/DependInfo.cmake --color= /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 81%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_update.dir/src/tiledb_metadata_update.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_metadata_update.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 81%] Built target tiledb_metadata_iterator 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 81%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -MD -MT genomicsdb-tiledb/examples/CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -MF CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o.d -o CMakeFiles/tiledb_metadata_write.dir/src/tiledb_metadata_write.cc.o -c /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_metadata_write.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 81%] Built target tiledb_metadata_primitive 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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 81%] Built target tiledb_metadata_read make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/src/main /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/tiledbgenomicsdb.dir/DependInfo.cmake --color= [ 81%] Building CXX object genomicsdb-tiledb/examples/CMakeFiles/tiledb_workspace_group_create.dir/src/tiledb_workspace_group_create.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/c++ -DENABLE_ZSTD -DHAVE_OPENMP -DTILEDB_VERBOSE -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/usr/include/muparserx -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/../core/include/c_api -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -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 /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/src/tiledb_workspace_group_create.cc [ 82%] Linking CXX executable tiledb_metadata_update cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_update.dir/link.txt --verbose=1 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make -f src/main/CMakeFiles/tiledbgenomicsdb.dir/build.make src/main/CMakeFiles/tiledbgenomicsdb.dir/build make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 82%] Linking CXX shared library libgenomicsdb.so cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 -shared -Wl,-soname,libgenomicsdb.so.0 -o libgenomicsdb.so.1.4.4 CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/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:/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib:/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core: /usr/lib/aarch64-linux-gnu/libprotobuf.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/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.9.1.0 /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 /lib64/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libbz2.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/liblzma.so [ 82%] Linking CXX executable tiledb_metadata_write cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_metadata_write.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 82%] Built target tiledb_metadata_update make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/src/main /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/genomicsdb.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 83%] Linking CXX executable tiledb_workspace_group_create make -f src/main/CMakeFiles/genomicsdb.dir/build.make src/main/CMakeFiles/genomicsdb.dir/build cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples && /usr/bin/cmake -E cmake_link_script CMakeFiles/tiledb_workspace_group_create.dir/link.txt --verbose=1 make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -lmuparserx [ 84%] Linking CXX static library libgenomicsdb.a cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/cmake -P CMakeFiles/genomicsdb.dir/cmake_clean_target.cmake cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdb.dir/link.txt --verbose=1 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/ar qc libgenomicsdb.a CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/variant_operations_columnar.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/broad_combined_gvcf_columnar.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/query_operations/gt_remapper_gvcf_columnar_iterator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_cell.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_storage_manager.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_data.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_array_schema.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant_field_handler.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/variant.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/query_variants.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_columnar_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_iterators.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/genomicsdb/genomicsdb_multid_vector_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_text_file.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/load_operators.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/genomicsdb_importer.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader_file_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/loader/tiledb_loader.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/memory_measure.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/histogram.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_pb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/lut.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/known_field_info.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/vid_mapper_sql.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/timer.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/genomicsdb_logger.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/utils/alleles_combiner_gvcf_columnar_iterator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/genomicsdb_bcf_generator.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/vcf2binary.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/hfile_genomicsdb.c.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/vcf/htslib_fs_adapter.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/variant_query_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/genomicsdb_config_base.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/json_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/config/pb_config.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/annotation_service.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_field.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/cpp/src/api/genomicsdb_plink.cc.o CMakeFiles/GenomicsDB_library_object_files.dir/__/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 [ 84%] Built target tiledb_metadata_write make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 84%] Built target tiledb_workspace_group_create cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/cmake -E cmake_symlink_library libgenomicsdb.so.1.4.4 libgenomicsdb.so.0 libgenomicsdb.so make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 84%] Built target tiledbgenomicsdb make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/src/main /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main/CMakeFiles/genomicsdbjni.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make -f src/main/CMakeFiles/genomicsdbjni.dir/build.make src/main/CMakeFiles/genomicsdbjni.dir/build make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 85%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBImporter.cc.o [ 85%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBUtils.cc.o [ 85%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQuery.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -I/srv/build/genomicsdb-1.4.4/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -I/srv/build/genomicsdb-1.4.4/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/jni/src/genomicsdb_GenomicsDBQuery.cc cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -I/srv/build/genomicsdb-1.4.4/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc /usr/bin/ranlib libgenomicsdb.a In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:28: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api/tiledb.h:43, from /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api/tiledb_utils.h:38, from /srv/build/genomicsdb-1.4.4/src/main/jni/src/genomicsdb_GenomicsDBUtils.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/load_operators.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/tiledb_loader.h:29, from /srv/build/genomicsdb-1.4.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:24: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf/vcf2binary.h:26, from /srv/build/genomicsdb-1.4.4/src/main/jni/src/genomicsdb_GenomicsDBImporter.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 85%] Built target genomicsdb make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/src/test/cpp /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/ctests.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make -f src/test/cpp/CMakeFiles/ctests.dir/build.make src/test/cpp/CMakeFiles/ctests.dir/build make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 85%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/ctest_main.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/srv/build/genomicsdb-1.4.4/tests/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/ctest_main.cc [ 85%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_GenomicsDBQueryStream.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -I/srv/build/genomicsdb-1.4.4/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc [ 85%] Linking CXX executable test_array_schema_api cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_array_schema_api.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx /usr/bin/ld: CMakeFiles/test_array_schema_api.dir/src/c_api/test_array_schema_api.cc.o: in function `TempDir::create_temp_directory()': ./obj-aarch64-linux-gnu/genomicsdb-tiledb/test/./genomicsdb-tiledb/test/include/catch2/catch.h:99: warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp' [ 85%] Building CXX object src/main/CMakeFiles/genomicsdbjni.dir/jni/src/genomicsdb_jni_init.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -Dgenomicsdbjni_EXPORTS -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -I/srv/build/genomicsdb-1.4.4/src/main/jni/include -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/main/jni/src/genomicsdb_jni_init.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 85%] Built target test_array_schema_api make -f src/test/cpp/CMakeFiles/api_tests.dir/build.make src/test/cpp/CMakeFiles/api_tests.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/src/test/cpp /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/CMakeFiles/api_tests.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 85%] Linking CXX executable test_dense_array_api [ 86%] Building CXX object src/test/cpp/CMakeFiles/api_tests.dir/src/ctest_main.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_dense_array_api.dir/link.txt --verbose=1 cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/ctest_main.cc /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /srv/build/genomicsdb-1.4.4/src/main/jni/src/genomicsdb_GenomicsDBQueryStream.cc:25: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:26: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ /usr/bin/ld: CMakeFiles/test_dense_array_api.dir/src/c_api/test_dense_array_api.cc.o: in function `TempDir::create_temp_directory()': ./obj-aarch64-linux-gnu/genomicsdb-tiledb/test/./genomicsdb-tiledb/test/include/catch2/catch.h:99: warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 86%] Built target test_dense_array_api make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools/CMakeFiles/create_genomicsdb_workspace.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/create_genomicsdb_workspace.dir/build.make tools/CMakeFiles/create_genomicsdb_workspace.dir/build make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 86%] Building CXX object tools/CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -I/srv/build/genomicsdb-1.4.4/tools/include -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/tools/src/create_genomicsdb_workspace.cc [ 86%] Linking CXX executable test_codec cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_codec.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now CMakeFiles/test_codec.dir/src/codec/test_codec.cc.o -o test_codec ../core/libgenomicsdb-tiledb.a /usr/lib/aarch64-linux-gnu/libz.so /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx [ 87%] Linking CXX executable create_genomicsdb_workspace cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 CMakeFiles/create_genomicsdb_workspace.dir/src/create_genomicsdb_workspace.cc.o -o create_genomicsdb_workspace -Wl,-rpath,/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/srv/build/genomicsdb-1.4.4/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_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.9.1.0 /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/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /lib64/libuuid.so -ldl make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 87%] Built target test_codec make -f tools/CMakeFiles/gt_mpi_gather.dir/build.make tools/CMakeFiles/gt_mpi_gather.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools/CMakeFiles/gt_mpi_gather.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 87%] Building CXX object tools/CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -I/srv/build/genomicsdb-1.4.4/tools/include -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/tools/src/gt_mpi_gather.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 87%] Built target create_genomicsdb_workspace make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb_init.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb_init.dir/build.make tools/CMakeFiles/vcf2genomicsdb_init.dir/build make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 87%] Building CXX object tools/CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -I/srv/build/genomicsdb-1.4.4/tools/include -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/tools/src/vcf2genomicsdb_init.cc [ 88%] Linking CXX executable test_codec_filter cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now CMakeFiles/test_codec_filter.dir/src/codec/test_codec_filter.cc.o -o test_codec_filter ../core/libgenomicsdb-tiledb.a /usr/lib/aarch64-linux-gnu/libz.so /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 88%] Built target test_codec_filter make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf2genomicsdb.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/vcf2genomicsdb.dir/build.make tools/CMakeFiles/vcf2genomicsdb.dir/build make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 88%] Building CXX object tools/CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -I/srv/build/genomicsdb-1.4.4/tools/include -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/tools/src/vcf2genomicsdb.cc make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcfdiff.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/vcfdiff.dir/build.make tools/CMakeFiles/vcfdiff.dir/build make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 88%] Building CXX object tools/CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -I/srv/build/genomicsdb-1.4.4/tools/include -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/tools/src/vcfdiff.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/tools/src/gt_mpi_gather.cc:30: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/tools/src/gt_mpi_gather.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 88%] Linking CXX executable test_tiledb_utils cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_tiledb_utils.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx /usr/bin/ld: make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools/CMakeFiles/vcf_histogram.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/vcf_histogram.dir/build.make tools/CMakeFiles/vcf_histogram.dir/build make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' CMakeFiles/test_tiledb_utils.dir/src/c_api/test_tiledb_utils.cc.o: in function `TempDir::create_temp_directory()': ./obj-aarch64-linux-gnu/genomicsdb-tiledb/test/./genomicsdb-tiledb/test/include/catch2/catch.h:99: warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp' [ 89%] Building CXX object tools/CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -I/srv/build/genomicsdb-1.4.4/tools/include -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/tools/src/vcf_histogram.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /srv/build/genomicsdb-1.4.4/tools/include/vcfdiff.h:31, from /srv/build/genomicsdb-1.4.4/tools/src/vcfdiff.cc:25: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/bits/stl_algobase.h:65, from /usr/include/c++/12/bits/stl_tree.h:63, from /usr/include/c++/12/map:60, from /usr/lib/aarch64-linux-gnu/openmpi/include/openmpi/ompi/mpi/cxx/mpicxx.h:42, from /usr/lib/aarch64-linux-gnu/openmpi/include/mpi.h:2887, from /srv/build/genomicsdb-1.4.4/tools/src/vcfdiff.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 89%] Built target test_tiledb_utils make -f tools/CMakeFiles/consolidate_genomicsdb_array.dir/build.make tools/CMakeFiles/consolidate_genomicsdb_array.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools/CMakeFiles/consolidate_genomicsdb_array.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 90%] Building CXX object tools/CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -I/srv/build/genomicsdb-1.4.4/tools/include -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/tools/src/consolidate_genomicsdb_array.cc [ 91%] Linking CXX executable test_mem_utils cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_mem_utils.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now CMakeFiles/test_mem_utils.dir/src/misc/test_mem_utils.cc.o -o test_mem_utils ../core/libgenomicsdb-tiledb.a /usr/lib/aarch64-linux-gnu/libz.so /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/load_operators.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/tiledb_loader.h:29, from /srv/build/genomicsdb-1.4.4/tools/src/vcf2genomicsdb.cc:25: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf/vcf2binary.h:26, from /srv/build/genomicsdb-1.4.4/tools/src/vcf2genomicsdb.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 91%] Built target test_mem_utils make -f example/CMakeFiles/test_genomicsdb_bcf_generator.dir/build.make example/CMakeFiles/test_genomicsdb_bcf_generator.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/example /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/example /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/example/CMakeFiles/test_genomicsdb_bcf_generator.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 91%] Building CXX object example/CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/example/src/test_genomicsdb_bcf_generator.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/broad_combined_gvcf.h:26, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf/genomicsdb_bcf_generator.h:27, from /srv/build/genomicsdb-1.4.4/example/src/test_genomicsdb_bcf_generator.cc:25: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/example/src/test_genomicsdb_bcf_generator.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/load_operators.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/tiledb_loader.h:29, from /srv/build/genomicsdb-1.4.4/tools/src/vcf_histogram.cc:24: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf/vcf2binary.h:26, from /srv/build/genomicsdb-1.4.4/tools/src/vcf_histogram.cc:23: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/load_operators.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/tiledb_loader.h:29, from /srv/build/genomicsdb-1.4.4/tools/src/consolidate_genomicsdb_array.cc:28: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/tools/src/consolidate_genomicsdb_array.cc:25: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 91%] Linking CXX executable test_uri cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now CMakeFiles/test_uri.dir/src/misc/test_uri.cc.o -o test_uri ../core/libgenomicsdb-tiledb.a /usr/lib/aarch64-linux-gnu/libz.so /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 91%] Built target test_uri make -f example/CMakeFiles/test_genomicsdb_importer.dir/build.make example/CMakeFiles/test_genomicsdb_importer.dir/depend make[4]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /srv/build/genomicsdb-1.4.4 /srv/build/genomicsdb-1.4.4/example /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/example /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/example/CMakeFiles/test_genomicsdb_importer.dir/DependInfo.cmake --color= make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/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 '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 92%] Building CXX object example/CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/example && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/example/src/test_genomicsdb_importer.cc [ 92%] Linking CXX executable gt_mpi_gather cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/gt_mpi_gather.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 CMakeFiles/gt_mpi_gather.dir/src/gt_mpi_gather.cc.o -o gt_mpi_gather -Wl,-rpath,/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/srv/build/genomicsdb-1.4.4/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_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.9.1.0 /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/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /lib64/libuuid.so -ldl In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/load_operators.h:27, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/tiledb_loader.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader/genomicsdb_importer.h:25, from /srv/build/genomicsdb-1.4.4/example/src/test_genomicsdb_importer.cc:25: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/c++/12/bits/locale_classes.h:40, from /usr/include/c++/12/bits/ios_base.h:41, from /usr/include/c++/12/ios:42, from /usr/include/c++/12/ostream:38, from /usr/include/c++/12/iostream:39, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils/headers.h:30, from /srv/build/genomicsdb-1.4.4/example/src/test_genomicsdb_importer.cc:24: /usr/include/c++/12/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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/example && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_genomicsdb_bcf_generator.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 CMakeFiles/test_genomicsdb_bcf_generator.dir/src/test_genomicsdb_bcf_generator.cc.o -o test_genomicsdb_bcf_generator -Wl,-rpath,/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/srv/build/genomicsdb-1.4.4/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_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.9.1.0 /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/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /lib64/libuuid.so -ldl [ 92%] Linking CXX executable test_utils cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o -o test_utils ../core/libgenomicsdb-tiledb.a /usr/lib/aarch64-linux-gnu/libz.so /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx /usr/bin/ld: CMakeFiles/test_utils.dir/src/misc/test_utils.cc.o: in function `TempDir::create_temp_directory()': ./obj-aarch64-linux-gnu/genomicsdb-tiledb/test/./genomicsdb-tiledb/test/include/catch2/catch.h:99: warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 92%] Built target test_utils [ 92%] Building CXX object src/test/cpp/CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_genomicsdb_api.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 92%] Built target gt_mpi_gather [ 92%] Built target test_genomicsdb_bcf_generator [ 92%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_config.cc.o [ 92%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_non_diploid_mapper.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/srv/build/genomicsdb-1.4.4/tests/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_config.cc cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/srv/build/genomicsdb-1.4.4/tests/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_non_diploid_mapper.cc [ 93%] Linking CXX executable test_storage_buffer cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx /usr/bin/ld: CMakeFiles/test_storage_buffer.dir/src/storage_manager/test_storage_buffer.cc.o: in function `TempDir::create_temp_directory()': ./obj-aarch64-linux-gnu/genomicsdb-tiledb/test/./genomicsdb-tiledb/test/include/catch2/catch.h:99: warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp' make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 93%] Built target test_storage_buffer [ 94%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_multid_vector.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/srv/build/genomicsdb-1.4.4/tests/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_multid_vector.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations/variant_operations.h:26, from /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_non_diploid_mapper.cc:26: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/catch2/catch.hpp:477, from /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_non_diploid_mapper.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 94%] Linking CXX executable test_sparse_array_api cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx /usr/bin/ld: CMakeFiles/test_sparse_array_api.dir/src/c_api/test_sparse_array_api.cc.o: in function `TempDir::create_temp_directory()': ./obj-aarch64-linux-gnu/genomicsdb-tiledb/test/./genomicsdb-tiledb/test/include/catch2/catch.h:99: warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp' [ 94%] Linking CXX executable test_posixfs cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test && /usr/bin/cmake -E cmake_link_script CMakeFiles/test_posixfs.dir/link.txt --verbose=1 [ 95%] Linking CXX executable vcfdiff cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfdiff.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now 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 /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 CMakeFiles/vcfdiff.dir/src/vcfdiff.cc.o -o vcfdiff -Wl,-rpath,/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/srv/build/genomicsdb-1.4.4/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_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.9.1.0 /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/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /lib64/libuuid.so -ldl /usr/bin/ld: make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' CMakeFiles/test_posixfs.dir/src/storage_manager/test_posixfs.cc.o: in function `TempDir::create_temp_directory()': ./obj-aarch64-linux-gnu/genomicsdb-tiledb/test/./genomicsdb-tiledb/test/include/catch2/catch.h:99: warning: the use of `mktemp' is dangerous, better use `mkstemp' or `mkdtemp' In file included from /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_genomicsdb_api.cc:28: /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_genomicsdb_api.cc: In member function ‘virtual void OneQueryIntervalProcessor::process(const std::string&, const int64_t*, const genomic_interval_t&, const std::vector&)’: /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_genomicsdb_api.cc:296:37: warning: comparison of integer expressions of different signedness: ‘std::vector::size_type’ {aka ‘long unsigned int’} and ‘int’ []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wsign-compare-Wsign-compare]8;;] 296 | CHECK(genomic_fields.size() == m_attributes_size + 2); // Add '2' for REF and ALT fields | ~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ [ 95%] Built target test_sparse_array_api [ 95%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_pb.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/srv/build/genomicsdb-1.4.4/tests/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_pb.cc /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_genomicsdb_api.cc: In function ‘void C_A_T_C_H_T_E_S_T_40()’: /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_genomicsdb_api.cc:589:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector::size_type’ {aka ‘long unsigned int’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wsign-compare-Wsign-compare]8;;] 589 | CHECK(num_threads == threads.size()); | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_field_data.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_multid_vector_field.h:27, from /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_multid_vector.cc:27: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/catch2/catch.hpp:477, from /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_multid_vector.cc:24: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 95%] Built target test_posixfs [ 95%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_logger.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/srv/build/genomicsdb-1.4.4/tests/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_logger.cc make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 95%] Built target vcfdiff [ 96%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_columnar_gvcf_iterator.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/srv/build/genomicsdb-1.4.4/tests/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc In file included from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_iterators.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_cell.h:28, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/variant_storage_manager.h:29, from /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/query_variants.h:27, from /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc:30: /srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb/genomicsdb_columnar_field.h:290:10: warning: ‘template struct std::iterator’ is deprecated []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wdeprecated-declarations-Wdeprecated-declarations]8;;] 290 | : std::iterator | ^~~~~~~~ In file included from /usr/include/c++/12/string:45, from /usr/include/catch2/catch.hpp:477, from /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc:28: /usr/include/c++/12/bits/stl_iterator_base_types.h:127:34: note: declared here 127 | struct _GLIBCXX17_DEPRECATED iterator | ^~~~~~~~ [ 97%] Linking CXX shared library libgenomicsdbjni.so cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main && /usr/bin/cmake -E cmake_link_script CMakeFiles/genomicsdbjni.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 -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,/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/main:/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/usr/lib/aarch64-linux-gnu/openmpi/lib:/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-htslib libgenomicsdb.so.1.4.4 ../../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_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libuuid.so -ldl ../../genomicsdb-htslib/libgenomicsdb-hts.so /usr/lib/aarch64-linux-gnu/libbz2.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/liblzma.so /usr/lib/aarch64-linux-gnu/librt.a /usr/lib/aarch64-linux-gnu/libfmt.so.9.1.0 make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [ 97%] Built target genomicsdbjni [ 97%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_htslib_plugin.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/srv/build/genomicsdb-1.4.4/tests/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_htslib_plugin.cc [ 97%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_alleles_combiner.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/srv/build/genomicsdb-1.4.4/tests/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_alleles_combiner.cc [ 98%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_gt_remapper.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/srv/build/genomicsdb-1.4.4/tests/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_gt_remapper.cc /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc: In function ‘void C_A_T_C_H_T_E_S_T_2()’: /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_columnar_gvcf_iterator.cc:390:59: warning: comparison of integer expressions of different signedness: ‘int32_t’ {aka ‘int’} and ‘uint64_t’ {aka ‘long unsigned int’} []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wsign-compare-Wsign-compare]8;;] 390 | REQUIRE(bcf_hdr_nsamples(bag.hdr[GoldTestEnum::GOLD]) == query_config.get_num_rows_to_query()); [ 98%] Building CXX object src/test/cpp/CMakeFiles/ctests.dir/src/test_bgen.cc.o cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/c++ -DDUPLICATE_CELL_AT_END=1 -DFMT_SHARED -DGENOMICSDB_CTESTS_DIR=\"/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/\" -DGENOMICSDB_TESTS_SRC_DIR=\"/srv/build/genomicsdb-1.4.4/tests/\" -DGENOMICSDB_VERSION=\"1.4.4-SNAPSHOT-\" -DINCLUDE_TEST_BGEN=1 -DSTRING_VIEW_FOUND=1 -D_FILE_OFFSET_BITS=64 -I/srv/build/genomicsdb-1.4.4/genomicsdb-htslib -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb -I/srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/core/include/c_api -I/usr/lib/aarch64-linux-gnu/openmpi/include -I/usr/lib/aarch64-linux-gnu/openmpi/include/openmpi -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/genomicsdb -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/loader -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/query_operations -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/utils -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/vcf -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/config -I/srv/build/genomicsdb-1.4.4/src/main/cpp/include/api -I/srv/build/genomicsdb-1.4.4/src/test/cpp/include -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch -I/srv/build/genomicsdb-1.4.4/src/test/cpp/INTERFACE -I/srv/build/genomicsdb-1.4.4/src/test/cpp/Catch2/single_include -I/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/resources -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -fstack-protector-strong -Wall -Wno-reorder -Wno-unknown-pragmas -Wno-unused-variable -Wno-unused-but-set-variable -Wno-unused-result -fopenmp -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 /srv/build/genomicsdb-1.4.4/src/test/cpp/src/test_bgen.cc [ 98%] Linking CXX executable consolidate_genomicsdb_array cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 CMakeFiles/consolidate_genomicsdb_array.dir/src/consolidate_genomicsdb_array.cc.o -o consolidate_genomicsdb_array -Wl,-rpath,/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/srv/build/genomicsdb-1.4.4/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_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.9.1.0 /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/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /lib64/libuuid.so -ldl [ 98%] Linking CXX executable vcf_histogram cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf_histogram.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 CMakeFiles/vcf_histogram.dir/src/vcf_histogram.cc.o -o vcf_histogram -Wl,-rpath,/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/srv/build/genomicsdb-1.4.4/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_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.9.1.0 /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/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /lib64/libuuid.so -ldl [ 99%] Linking CXX executable test_expressions cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++11 -Wno-literal-suffix -fopenmp -Wl,-z,relro -Wl,-z,now CMakeFiles/test_expressions.dir/src/expressions/test_expressions.cc.o -o test_expressions ../core/libgenomicsdb-tiledb.a /usr/lib/aarch64-linux-gnu/libz.so /lib64/libuuid.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so -ldl /usr/lib/aarch64-linux-gnu/libmuparserx.so -ldl -lmuparserx [100%] Linking CXX executable vcf2genomicsdb cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 CMakeFiles/vcf2genomicsdb.dir/src/vcf2genomicsdb.cc.o -o vcf2genomicsdb -Wl,-rpath,/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/srv/build/genomicsdb-1.4.4/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_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.9.1.0 /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/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /lib64/libuuid.so -ldl make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [100%] Built target test_expressions make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [100%] Built target consolidate_genomicsdb_array make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [100%] Built target vcf_histogram make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [100%] Built target vcf2genomicsdb [100%] Linking CXX executable test_genomicsdb_importer cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 CMakeFiles/test_genomicsdb_importer.dir/src/test_genomicsdb_importer.cc.o -o test_genomicsdb_importer -Wl,-rpath,/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/srv/build/genomicsdb-1.4.4/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_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.9.1.0 /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/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /lib64/libuuid.so -ldl make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [100%] Built target test_genomicsdb_importer [100%] Linking CXX executable vcf2genomicsdb_init cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2genomicsdb_init.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -ffile-prefix-map=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 CMakeFiles/vcf2genomicsdb_init.dir/src/vcf2genomicsdb_init.cc.o -o vcf2genomicsdb_init -Wl,-rpath,/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/srv/build/genomicsdb-1.4.4/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_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.9.1.0 /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/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /lib64/libuuid.so -ldl make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [100%] Built target vcf2genomicsdb_init [100%] Linking CXX executable api_tests cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 CMakeFiles/api_tests.dir/src/ctest_main.cc.o CMakeFiles/api_tests.dir/src/test_genomicsdb_api.cc.o -o api_tests -Wl,-rpath,/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/srv/build/genomicsdb-1.4.4/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_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.9.1.0 /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/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /lib64/libuuid.so -ldl cd /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp && /usr/bin/cmake -E tar xzf /srv/build/genomicsdb-1.4.4/src/test/cpp/../inputs/test.tgz make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [100%] Built target api_tests [100%] Linking CXX executable ctests cd /srv/build/genomicsdb-1.4.4/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=/srv/build/genomicsdb-1.4.4=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++17 -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 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 -o ctests -Wl,-rpath,/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/core:/srv/build/genomicsdb-1.4.4/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_cxx.so /usr/lib/aarch64-linux-gnu/openmpi/lib/libmpi.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /usr/lib/aarch64-linux-gnu/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libuuid.so -ldl /usr/lib/aarch64-linux-gnu/libfmt.so.9.1.0 /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/libssl.so /usr/lib/aarch64-linux-gnu/libcrypto.so /lib64/libcurl.so /lib64/libuuid.so -ldl make[4]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' [100%] Built target ctests make[3]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' make[1]: Leaving directory '/srv/build/genomicsdb-1.4.4' jh_build -a -O--buildsystem=cmake dh_auto_test -a -O--buildsystem=cmake cd obj-aarch64-linux-gnu && make -j16 test ARGS\+=--verbose ARGS\+=-j16 make[1]: Entering directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' Running tests... /usr/bin/ctest --force-new-ctest-process --verbose -j16 UpdateCTestConfiguration from :/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/DartConfiguration.tcl UpdateCTestConfiguration from :/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/DartConfiguration.tcl Test project /srv/build/genomicsdb-1.4.4/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 test 1 Start 1: test_array_schema 1: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_array_schema 1: Working Directory: /srv/build/genomicsdb-1.4.4/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: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_print_array_schema 2: Working Directory: /srv/build/genomicsdb-1.4.4/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: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_print_book_keeping 3: Working Directory: /srv/build/genomicsdb-1.4.4/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: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_sparse_array_benchmark 4: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 4: Test timeout computed to be: 10000000 test 5 Start 5: test_array_iterator 5: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_array_iterator 5: Working Directory: /srv/build/genomicsdb-1.4.4/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: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_array_schema_api 6: Working Directory: /srv/build/genomicsdb-1.4.4/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: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_dense_array_api 7: Working Directory: /srv/build/genomicsdb-1.4.4/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: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_sparse_array_api 8: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 8: Test timeout computed to be: 10000000 test 9 Start 9: test_tiledb_utils 9: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_tiledb_utils 9: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 9: Test timeout computed to be: 10000000 test 10 Start 10: test_codec 10: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_codec 10: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 10: Test timeout computed to be: 10000000 test 11 Start 11: test_codec_filter 11: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_codec_filter 11: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 11: Test timeout computed to be: 10000000 test 12 Start 12: test_expressions 12: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_expressions 12: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 12: Test timeout computed to be: 10000000 test 13 Start 13: test_mem_utils 13: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_mem_utils 13: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 13: Test timeout computed to be: 10000000 test 14 Start 14: test_uri 14: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_uri 14: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 14: Test timeout computed to be: 10000000 test 15 Start 15: test_utils 15: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_utils 15: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 15: Test timeout computed to be: 10000000 test 16 Start 16: test_posixfs 16: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_posixfs 16: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 16: Test timeout computed to be: 10000000 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: /srv/build/genomicsdb-1.4.4/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: =============================================================================== 4: test cases: 1 | 1 passed 4: assertions: - none - 4: 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/TileDBTestEVlTVU/array_iterator_test_ws/test_sparse_array_it_full/.__1ba8e9b5-b534-4c32-8a15-979b16379060281473240891424_1687387560014/ATTR_INT32.tdb. 5: 5: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 5: test_array_iterator is a Catch v2.13.10 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:193 5: ............................................................................... 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:106: 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/TileDBTestEVlTVU/array_iterator_test_ws/test_sparse_array_it_full/.__1ba8e9b5-b534-4c32-8a15-979b16379060281473240891424_1687387560014/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: 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:184: 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/TileDBTestLkV5O7/array_iterator_test_ws/test_sparse_array_it_reset/.__ef396bc3-b99e-4d32-9ab2-1ee518e5feec281473240891424_1687387560021/ATTR_INT32.tdb. 5: ------------------------------------------------------------------------------- 5: Test sparse array iterator with reset 5: ------------------------------------------------------------------------------- 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:200 5: ............................................................................... 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:106: 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/TileDBTestLkV5O7/array_iterator_test_ws/test_sparse_array_it_reset/.__ef396bc3-b99e-4d32-9ab2-1ee518e5feec281473240891424_1687387560021/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: 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:184: FAILED: 5: CHECK( i == nval ) 5: with expansion: 5: 0 == 8 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:184: 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/TileDBTest5ChAcF/array_iterator_test_ws/test_sparse_array_it_reset_subarray/.__eb6a1820-5597-462e-8efb-a8f7b03e81cd281473240891424_1687387560026/ATTR_INT32.tdb. 5: ------------------------------------------------------------------------------- 5: Test sparse array iterator with reset subarray 5: ------------------------------------------------------------------------------- 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:210 5: ............................................................................... 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:106: 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/TileDBTest5ChAcF/array_iterator_test_ws/test_sparse_array_it_reset_subarray/.__eb6a1820-5597-462e-8efb-a8f7b03e81cd281473240891424_1687387560026/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: 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:184: FAILED: 5: CHECK( i == nval ) 5: with expansion: 5: 0 == 8 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:184: 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/TileDBTestlP96FP/array_iterator_test_ws/test_sparse_array_it_filter/.__429ddab0-2488-46dc-94a7-81414fae0a4d281473240891424_1687387560030/ATTR_INT32.tdb. 5: ------------------------------------------------------------------------------- 5: Test sparse array iterator with filter 5: ------------------------------------------------------------------------------- 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:220 5: ............................................................................... 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:106: 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/TileDBTestlP96FP/array_iterator_test_ws/test_sparse_array_it_filter/.__429ddab0-2488-46dc-94a7-81414fae0a4d281473240891424_1687387560030/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: 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:184: 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/TileDBTestSkjoDm/array_iterator_test_ws/test_sparse_array_it_filter_reset/.__bbbe41b6-f66f-47c5-9a4f-adc018d270a5281473240891424_1687387560038/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:227 5: ............................................................................... 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:106: 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/TileDBTestSkjoDm/array_iterator_test_ws/test_sparse_array_it_filter_reset/.__bbbe41b6-f66f-47c5-9a4f-adc018d270a5281473240891424_1687387560038/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: 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:184: FAILED: 5: CHECK( i == nval ) 5: with expansion: 5: 0 == 4 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:184: 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/TileDBTesteikIOB/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__60d0dfbe-98b7-422d-b02f-7cec9e73094f281473240891424_1687387560044/ATTR_INT32.tdb. 5: ------------------------------------------------------------------------------- 5: Test sparse array iterator with filteri with empty value 5: ------------------------------------------------------------------------------- 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:237 5: ............................................................................... 5: 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:106: 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/TileDBTesteikIOB/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__60d0dfbe-98b7-422d-b02f-7cec9e73094f281473240891424_1687387560044/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: 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/TileDBTesteikIOB/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__5b8ae782-1545-427b-90fe-19d42f547fcd281473240891424_1687387560046/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:125: 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/TileDBTesteikIOB/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__5b8ae782-1545-427b-90fe-19d42f547fcd281473240891424_1687387560046/ATTR_INT32.tdb. 5: ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:126: 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:184: 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: 6: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 6: test_array_schema_api is a Catch v2.13.10 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:352 6: ............................................................................... 6: 6: ./genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc:371: 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: 9: [TileDB::utils] Error: (set_working_dir) Failed to set_working_dir as /tmp/TileDBTest5E7n5L/WORKSPACE.non-existent does not exist 9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestw7vidG/WORKSPACE errno=2(No such file or directory) 9: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=/tmp/TileDBTestw7vidG/WORKSPACE errno=2(No such file or directory) 9: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=/tmp/TileDBTestiGcV90/WORKSPACE errno=2(No such file or directory) 9: 7e820c3ee657b1a27a56a7be9d202a7a7e820c3ee657b1a27a56a7be9d202a7a[TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestmUrChA/test_file 9: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestmUrChA/test_file 10: [TileDB::utils] Error: (gzip_handle_error) Cannot decompress with GZIP: inflate error: Z_BUF_ERROR 10: [TileDB::Codec] Error: Could not decompress with GZIP. 10: [TileDB::utils] Error: (gzip_handle_error) Cannot decompress with GZIP: inflate error: Z_BUF_ERROR 10: [TileDB::Codec] Error: Could not decompress with GZIP. 10: [TileDB::utils] Error: (gzip_handle_error) Cannot decompress with GZIP: inflate error: Z_DATA_ERROR 10: [TileDB::Codec] Error: Could not decompress with GZIP. 10: [TileDB::Codec] Error: Codec for compression type=15 has already been registered. 10: =============================================================================== 10: All tests passed (31 assertions in 5 test cases) 10: 11: [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: 13: Wed Jun 21 22:46:00 2023 Memory stats Tracking memory usage START size=5MB resident=3MB share=2MB text=572KB lib=0 data=520KB dt=0 1/21 Test #1: test_array_schema ................ Passed 0.17 sec test 17 Start 17: test_storage_buffer 17: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test/test_storage_buffer 17: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/test 17: Test timeout computed to be: 10000000 2/21 Test #2: test_print_array_schema .......... Passed 0.17 sec test 18 Start 18: ci_tests 18: Test command: /srv/build/genomicsdb-1.4.4/genomicsdb-tiledb/examples/run_examples.sh 18: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples 18: Test timeout computed to be: 10000000 3/21 Test #3: test_print_book_keeping .......... Passed 0.17 sec test 19 Start 19: ctests 19: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests "-d" "yes" 19: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp 19: Test timeout computed to be: 10000000 4/21 Test #4: test_sparse_array_benchmark ...... Passed 0.18 sec test 20 Start 20: api_tests 20: Test command: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/api_tests "-d" "yes" 20: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp 20: Test timeout computed to be: 10000000 5/21 Test #5: test_array_iterator ..............***Failed 0.18 sec [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/TileDBTestEVlTVU/array_iterator_test_ws/test_sparse_array_it_full/.__1ba8e9b5-b534-4c32-8a15-979b16379060281473240891424_1687387560014/ATTR_INT32.tdb. ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ test_array_iterator is a Catch v2.13.10 host application. Run with -? for options ------------------------------------------------------------------------------- Test sparse array iterator ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:193 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:106: 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/TileDBTestEVlTVU/array_iterator_test_ws/test_sparse_array_it_full/.__1ba8e9b5-b534-4c32-8a15-979b16379060281473240891424_1687387560014/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:184: 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/TileDBTestLkV5O7/array_iterator_test_ws/test_sparse_array_it_reset/.__ef396bc3-b99e-4d32-9ab2-1ee518e5feec281473240891424_1687387560021/ATTR_INT32.tdb. ------------------------------------------------------------------------------- Test sparse array iterator with reset ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:200 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:106: 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/TileDBTestLkV5O7/array_iterator_test_ws/test_sparse_array_it_reset/.__ef396bc3-b99e-4d32-9ab2-1ee518e5feec281473240891424_1687387560021/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:184: FAILED: CHECK( i == nval ) with expansion: 0 == 8 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:184: 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/TileDBTest5ChAcF/array_iterator_test_ws/test_sparse_array_it_reset_subarray/.__eb6a1820-5597-462e-8efb-a8f7b03e81cd281473240891424_1687387560026/ATTR_INT32.tdb. ------------------------------------------------------------------------------- Test sparse array iterator with reset subarray ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:210 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:106: 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/TileDBTest5ChAcF/array_iterator_test_ws/test_sparse_array_it_reset_subarray/.__eb6a1820-5597-462e-8efb-a8f7b03e81cd281473240891424_1687387560026/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:184: FAILED: CHECK( i == nval ) with expansion: 0 == 8 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:184: 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/TileDBTestlP96FP/array_iterator_test_ws/test_sparse_array_it_filter/.__429ddab0-2488-46dc-94a7-81414fae0a4d281473240891424_1687387560030/ATTR_INT32.tdb. ------------------------------------------------------------------------------- Test sparse array iterator with filter ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:220 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:106: 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/TileDBTestlP96FP/array_iterator_test_ws/test_sparse_array_it_filter/.__429ddab0-2488-46dc-94a7-81414fae0a4d281473240891424_1687387560030/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:184: 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/TileDBTestSkjoDm/array_iterator_test_ws/test_sparse_array_it_filter_reset/.__bbbe41b6-f66f-47c5-9a4f-adc018d270a5281473240891424_1687387560038/ATTR_INT32.tdb. ------------------------------------------------------------------------------- Test sparse array iterator with filter with subarray ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:227 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:106: 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/TileDBTestSkjoDm/array_iterator_test_ws/test_sparse_array_it_filter_reset/.__bbbe41b6-f66f-47c5-9a4f-adc018d270a5281473240891424_1687387560038/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:184: FAILED: CHECK( i == nval ) with expansion: 0 == 4 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:184: 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/TileDBTesteikIOB/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__60d0dfbe-98b7-422d-b02f-7cec9e73094f281473240891424_1687387560044/ATTR_INT32.tdb. ------------------------------------------------------------------------------- Test sparse array iterator with filteri with empty value ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:237 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:106: 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/TileDBTesteikIOB/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__60d0dfbe-98b7-422d-b02f-7cec9e73094f281473240891424_1687387560044/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:107: 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/TileDBTesteikIOB/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__5b8ae782-1545-427b-90fe-19d42f547fcd281473240891424_1687387560046/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:125: 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/TileDBTesteikIOB/array_iterator_test_ws/test_sparse_array_it_filter_with_empty_value/.__5b8ae782-1545-427b-90fe-19d42f547fcd281473240891424_1687387560046/ATTR_INT32.tdb. ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:126: FAILED: CHECK( tiledb_array_finalize(tiledb_array) == 0 ) with expansion: -1 == 0 ./genomicsdb-tiledb/test/src/c_api/test_array_iterator.cc:184: FAILED: CHECK( i == nval ) with expansion: 0 == 4 =============================================================================== test cases: 6 | 0 passed | 6 failed assertions: 81 | 58 passed | 23 failed test 21 Start 21: tools_tests 21: Test command: /srv/build/genomicsdb-1.4.4/tests/test_tools.sh "/srv/build/genomicsdb-1.4.4/tests/inputs/vcfs" "/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools" 21: Working Directory: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/tools 21: Test timeout computed to be: 10000000 6/21 Test #6: test_array_schema_api ............***Failed 0.18 sec ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ test_array_schema_api is a Catch v2.13.10 host application. Run with -? for options ------------------------------------------------------------------------------- Test array schema backward compatibility 2 ------------------------------------------------------------------------------- ./genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc:352 ............................................................................... ./genomicsdb-tiledb/test/src/c_api/test_array_schema_api.cc:371: 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 7/21 Test #10: test_codec ....................... Passed 0.15 sec 8/21 Test #11: test_codec_filter ................ Passed 0.14 sec 14: =============================================================================== 14: All tests passed (58 assertions in 1 test case) 14: 9/21 Test #14: test_uri ......................... Passed 0.12 sec 15: [TileDB::utils] Error: (RLE_compress) Failed compressing with RLE; invalid input buffer format 15: [TileDB::utils] Error: (RLE_compress) Failed compressing with RLE; output buffer overflow 15: [TileDB::utils] Error: (RLE_compress_coords_row) Failed compressing coordinates with RLE; invalid buffer format 15: [TileDB::utils] Error: (RLE_compress_coords_row) Filed compressing coordinates with RLE; output buffer overflow 15: [TileDB::utils] Error: (RLE_compress_coords_col) Failed compressing coordinates with RLE; invalid buffer format 15: [TileDB::utils] Error: (RLE_compress_coords_col) Failed compressing coordinates with RLE; output buffer overflow 15: [TileDB::FileSystem] Error: (create_dir) Cannot create directory path=/non-existent-dir/dir errno=2(No such file or directory) 15: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/non-existent-dir/file errno=2(No such file or directory) 15: [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) 15: [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) 15: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/non-existent-dir/file errno=2(No such file or directory) 15: [TileDB::FileSystem] Error: (delete_dir) Could not recursively delete directory path=/non-existent-dir/dir errno=2(No such file or directory) 15: [TileDB::FileSystem] Error: (move_path) Cannot rename path path=/non-existent-dir/old errno=2(No such file or directory) 15: =============================================================================== 15: All tests passed (86 assertions in 6 test cases) 15: 10/21 Test #15: test_utils ....................... Passed 0.11 sec 16: [TileDB::FileSystem] Error: (create_dir) Cannot create directory; Directory already exists path=/tmp/TileDBTest2ddab9/test_posixfs_dirdir 16: [TileDB::FileSystem] Error: (create_dir) Cannot create directory path=/non-existent-dir/foo errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTest2ddab9/test_posixfs_dirdir errno=21(Is a directory) 16: [TileDB::FileSystem] Error: (create_file) Failed to create file path=/tmp/TileDBTest2ddab9/test_posixfs_dirdir errno=21(Is a directory) 16: [TileDB::FileSystem] Error: (get_dirs) Cannot open directory path=non-existent-dir errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (move_path) Cannot rename path path=non-existent-dir errno=18(Invalid cross-device link) 16: [TileDB::FileSystem] Error: (delete_dir) Could not recursively delete directory path=non-existent-dir errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (get_files) Cannot open directory path=non-existent-dir errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (delete_file) Cannot remove file path=/tmp/TileDBTeste5vZWJ/test_posixfs_dirfile/foo1 errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestrryVqC/test_posixfs_dirread_write/foo 16: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestrryVqC/test_posixfs_dirread_write/foo 16: [TileDB::FileSystem] Error: (read_from_file) EOF reached; File reading error path=/tmp/TileDBTestrryVqC/test_posixfs_dirread_write/foo 16: [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) 16: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=non-existent-dir/foo errno=2(No such file or directory) 16: [TileDB::FileSystem] Error: (read_from_file) Cannot open simultaneously for reads/writes path=test_posixfs_dir_locking/foo 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: (Expression) Attribute a2 in expression filter not present in the array schema 12: [TileDB::Expression] Error: (evaluate_cell) Parser evaluate error, possibly due to bad filter expression: 12: Undefined token "a2" found at position 0. 17: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTestfXVFSv/test-file 17: [TileDB::StorageBuffer] Error: (StorageBuffer) File does not seem to exist or is of zero length path=/tmp/TileDBTestfXVFSv/test-file-non-existent errno=2(No such file or directory) 17: [TileDB::StorageBuffer] Error: (StorageBuffer) Cannot perform buffered reads or writes as there is no buffer chunk size set path=/tmp/TileDBTestfXVFSv/test-file 17: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestfXVFSv/test-file 17: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=/non-existent-file errno=13(Permission denied) 17: [TileDB::StorageBuffer] Error: (write_buffer) Cannot write bytes path=/non-existent-file errno=13(Permission denied) 17: [TileDB::StorageBuffer] Error: (finalize) Could not finalize buffer after compression path=/non-existent-file errno=13(Permission denied) 17: [TileDB::FileSystem] Error: (write_to_file) Cannot write to file; File opening error path=/non-existent-file errno=13(Permission denied) 17: [TileDB::StorageBuffer] Error: (gzip_write_buffer) Cannot write bytes path=/non-existent-file errno=13(Permission denied) 17: [TileDB::StorageBuffer] Error: (write_buffer) Cannot compress and/or write bytes path=/non-existent-file errno=13(Permission denied) 17: [TileDB::StorageBuffer] Error: (finalize) Could not finalize buffer after compression path=/non-existent-file errno=13(Permission denied) 17: [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) 17: [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) 17: [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) 17: [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) 17: [TileDB::StorageBuffer] Error: (write_buffer) Compression type=1000 not supported in StorageBuffer 17: [TileDB::StorageBuffer] Error: (finalize) Could not finalize buffer after compression path=/non-existent-file errno=2(No such file or directory) 17: [TileDB::StorageBuffer] Error: (read_buffer) Compression type=1000 for read_buffer not supported for CompressedStorageBuffer 17: [TileDB::StorageBuffer] Error: (read_buffer) Cannot read past the filesize from buffer path=/tmp/TileDBTestOvXaz6/compressed_foo 18: Example 1: Running ./tiledb_workspace_group_create... 16: [TileDB::FileSystem] Error: (~PosixFS) File does not seem to be closed path=test_dir_locking1/foo_sync 16: [TileDB::FileSystem] Error: (~PosixFS) File does not seem to be closed path=test_dir_locking1/foo_no_close 18: Example 1: Done running ./tiledb_workspace_group_create 18: Example 2: Running ./tiledb_ls_workspaces... 16: =============================================================================== 16: All tests passed (256 assertions in 11 test cases) 16: 11/21 Test #16: test_posixfs ..................... Passed 0.19 sec 20: 0.000 s: api get_version 20: 0.002 s: api empty_args 19: 0.004 s: Check loader configuration with json file 19: 0.002 s: Check configuration with json file 19: 0.002 s: Check configuration with json file and shared posifs optim 19: 0.002 s: Compare configuration with json file and string 19: 0.000 s: genotype_ordering haploid_5_alleles 19: 0.000 s: genotype_ordering diploid_2_alleles 19: 0.000 s: genotype_ordering diploid_3_alleles 19: 0.000 s: genotype_ordering diploid_4_alleles 19: 0.000 s: genotype_ordering triploid_2_alleles 19: 0.000 s: genotype_ordering triploid_3_alleles 19: 0.000 s: genotype_ordering triploid_4_alleles 19: 0.000 s: genotype_ordering triploid_4_alleles_reordered_alleles 19: 0.000 s: genotype_ordering triploid_4_alleles_reordered_alleles_without_NON_REF 19: 0.001 s: multid_vector 2D_test 19: 0.000 s: multid_vector 3D_test 19: 0.000 s: multid_vector 2D_test_with_missing_values 19: 0.000 s: multid_vector 2D_float_test 19: 0.000 s: multid_vector 2D_tuple_test 19: 0.000 s: pb_query_config_test 19: 0.012 s: pb_vid_mapping_test 19: 22:46:00.314 INFO NativeGenomicsDB - pid=3059 tid=3059 This is a test 19: 22:46:00.315 WARN NativeGenomicsDB - pid=3059 tid=3059 This is a test 19: 22:46:00.315 ERROR NativeGenomicsDB - pid=3059 tid=3059 This is a test 19: 22:46:00.315 DEBUG NativeGenomicsDB - pid=3059 tid=3059 This is a test 19: This is a test 19: This is a test 19: This is a test 19: This is a test 19: This is a once_only test 19: Trying format Hello1 Hello2 19: 0.002 s: test logger 19: 22:46:00.316 INFO NativeGenomicsDB - pid=3059 tid=3059 i=1 str=This is a test 19: 22:46:00.316 WARN NativeGenomicsDB - pid=3059 tid=3059 i=2 str=This is a test 19: 22:46:00.316 ERROR NativeGenomicsDB - pid=3059 tid=3059 i=3 str=This is a test 19: 22:46:00.316 DEBUG NativeGenomicsDB - pid=3059 tid=3059 i=4 str=This is a test 19: 22:46:00.316 INFO NativeGenomicsDB - pid=3059 tid=3059 i=6 str=This is a once_only test 19: 22:46:00.316 WARN NativeGenomicsDB - pid=3059 tid=3059 i=7 str=This is a once_only test 19: 0.000 s: test logger format 19: 22:46:00.316 ERROR NativeGenomicsDB - pid=3059 tid=3059 i=1 str=This is a test 19: 22:46:00.317 ERROR NativeGenomicsDB - pid=3059 tid=3059 Test Exception 19: 22:46:00.317 ERROR NativeGenomicsDB - pid=3059 tid=3059 Test Exception 19: 22:46:00.318 ERROR NativeGenomicsDB - pid=3059 tid=3059 Test Exception 19: 22:46:00.318 ERROR NativeGenomicsDB - pid=3059 tid=3059 Native Stack Trace: 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xd26b4) [0xaaaab35426b4] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xc6784) [0xaaaab3536784] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x4c438) [0xaaaab34bc438] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x655fc) [0xaaaab34d55fc] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6bc94) [0xaaaab34dbc94] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6d9e8) [0xaaaab34dd9e8] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6e030) [0xaaaab34de030] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3e5b0) [0xaaaab34ae5b0] 19: /lib/aarch64-linux-gnu/libc.so.6(+0x27780) [0xffff94397780] 19: 22:46:00.319 ERROR NativeGenomicsDB - pid=3059 tid=3059 Test Exception 19: 22:46:00.319 ERROR NativeGenomicsDB - pid=3059 tid=3059 Native Stack Trace: 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xd26b4) [0xaaaab35426b4] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xc6794) [0xaaaab3536794] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x4c438) [0xaaaab34bc438] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x655fc) [0xaaaab34d55fc] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6bc94) [0xaaaab34dbc94] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6d9e8) [0xaaaab34dd9e8] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6e030) [0xaaaab34de030] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3e5b0) [0xaaaab34ae5b0] 19: /lib/aarch64-linux-gnu/libc.so.6(+0x27780) [0xffff94397780] 19: 0.003 s: test logger exceptions 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xd26b4) [0xaaaab35426b4] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xc93f0) [0xaaaab35393f0] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x4c438) [0xaaaab34bc438] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x655fc) [0xaaaab34d55fc] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6bc94) [0xaaaab34dbc94] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6d9e8) [0xaaaab34dd9e8] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6e030) [0xaaaab34de030] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3e5b0) [0xaaaab34ae5b0] 19: /lib/aarch64-linux-gnu/libc.so.6(+0x27780) [0xffff94397780] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xd26b4) [0xaaaab35426b4] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xc935c) [0xaaaab353935c] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x4c438) [0xaaaab34bc438] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x655fc) [0xaaaab34d55fc] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6bc94) [0xaaaab34dbc94] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6d9e8) [0xaaaab34dd9e8] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6e030) [0xaaaab34de030] 19: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3e5b0) [0xaaaab34ae5b0] 19: /lib/aarch64-linux-gnu/libc.so.6(+0x27780) [0xffff94397780] 19: This is a test 19: 0.001 s: test explicit logger 12: [TileDB::Expression] Error: (Expression) Expression parsing for dense arrays not yet implemented 12: =============================================================================== 12: All tests passed (3009 assertions in 80 test cases) 12: 12/21 Test #12: test_expressions ................. Passed 0.30 sec 19: 0.040 s: gvcf iterator 20: 0.100 s: api query_variants direct DP 18: my_workspace 18: Example 2: Done running ./tiledb_ls_workspaces 18: Example 3: Running ./tiledb_array_create_dense... 20: 0.035 s: api query_variants direct DP with huge row range 19: 0.062 s: columnar_gvcf_iterator_test 19: [TileDB] Error: No TileDB support for URL=dfdfd://ddd. 19: 22:46:00.423 ERROR NativeGenomicsDB - pid=3059 tid=3059 htslib_plugin could not open file dfdfd://ddd No TileDB support for URL=dfdfd://ddd 19: [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) 19: 22:46:00.423 ERROR NativeGenomicsDB - pid=3059 tid=3059 hts_plugin read /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) 19: [TileDB::FileSystem] Error: (read_from_file) Cannot read from file; File opening error path=non-existent-file errno=2(No such file or directory) 19: 22:46:00.424 ERROR NativeGenomicsDB - pid=3059 tid=3059 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) 19: 0.003 s: test htslib plugin 19: 0.001 s: alleles_combiner 19: 0.000 s: gt_remapper 20: 0.032 s: api query_variants direct DP with huge disjoint row ranges 18: Example 3: Done running ./tiledb_array_create_dense 18: Example 4: Running ./tiledb_array_create_sparse... 20: 0.061 s: api query_variants direct DP with range composed of multiple points 18: Example 4: Done running ./tiledb_array_create_sparse 18: Example 5: Running ./tiledb_array_primitive... 20: 0.060 s: api query_variants direct DP with range composed of overlapping ranges 20: 0.011 s: api query_variants direct DP with invalid row range 18: Array name: my_workspace/dense_arrays/my_array_A 18: Attributes: a1 a2 a3 18: The array is dense 18: Array name: my_workspace/sparse_arrays/my_array_B 18: Attributes: a1 a2 a3 18: The array is sparse 18: Example 5: Done running ./tiledb_array_primitive 18: Example 6: Running ./tiledb_array_write_dense_1... 20: 0.094 s: api query_variants direct DP and GT 18: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 18: [TileDB::Codec] Error: Could not compress with GZIP. 18: [TileDB::WriteState] Error: Cannot compress tile for /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/my_workspace/dense_arrays/my_array_A/.__5f266033-22e4-4205-a4af-ed677d3e30ad281473605857312_1687387560670/a1.tdb. 18: [TileDB::WriteState] Error: Cannot compress tile for /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/my_workspace/dense_arrays/my_array_A/.__5f266033-22e4-4205-a4af-ed677d3e30ad281473605857312_1687387560670/a1.tdb[Examples::./genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc] Runtime Error. 18: 18: Exit Status=255. Quitting execution of run_examples.sh 13/21 Test #18: ci_tests .........................***Failed 0.55 sec Example 1: Running ./tiledb_workspace_group_create... Example 1: Done running ./tiledb_workspace_group_create Example 2: Running ./tiledb_ls_workspaces... my_workspace 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 /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/my_workspace/dense_arrays/my_array_A/.__5f266033-22e4-4205-a4af-ed677d3e30ad281473605857312_1687387560670/a1.tdb. [TileDB::WriteState] Error: Cannot compress tile for /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/genomicsdb-tiledb/examples/my_workspace/dense_arrays/my_array_A/.__5f266033-22e4-4205-a4af-ed677d3e30ad281473605857312_1687387560670/a1.tdb[Examples::./genomicsdb-tiledb/examples/src/tiledb_array_write_dense_1.cc] Runtime Error. Exit Status=255. Quitting execution of run_examples.sh 20: 0.093 s: api query_variants direct DP and GT with PP 20: 0.060 s: api query_variants with json 20: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/inputs/ws/t0_1_2/.__consolidation_lock 20: 0.055 s: api query variants with json string 20: 0.026 s: api query variants with enabled shared posixfs optimizations 20: ---------------- 20: Interval:[0,1000000000] 20: 20: sample=HG00141 20: row=0 position=12140 20: genomic_interval=1:12141,12295 20: genomic_fields 20: REF:C ALT:[] 20: sample=HG01958 20: row=1 position=12144 20: genomic_interval=1:12145,12277 20: genomic_fields 20: REF:C ALT:[] 20: sample=HG00141 20: row=0 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[A, ] 20: sample=HG01958 20: row=1 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[T, ] DP:120 20: sample=HG01530 20: row=2 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[A, ] DP:76 20: 0.125 s: api query_variant_calls direct 20: ---------------- 20: Interval:[0,1000000000] 20: 20: sample=HG00141 20: row=0 position=12140 20: genomic_interval=1:12141,12295 20: genomic_fields 20: REF:C ALT:[] GT:0/0 20: sample=HG01958 20: row=1 position=12144 20: genomic_interval=1:12145,12277 20: genomic_fields 20: REF:C ALT:[] GT:0/0 20: sample=HG00141 20: row=0 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[A, ] GT:0/1 20: sample=HG01958 20: row=1 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[T, ] GT:1/1 DP:120 20: sample=HG01530 20: row=2 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[A, ] GT:0/1 DP:76 13: Wed Jun 21 22:46:01 2023 Memory stats Tracking memory usage END size=5MB resident=3MB share=2MB text=572KB lib=0 data=520KB dt=0 13: =============================================================================== 13: test cases: 1 | 1 passed 13: assertions: - none - 13: 14/21 Test #13: test_mem_utils ................... Passed 1.03 sec 19: 19: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 19: ctests is a Catch v2.13.10 host application. 19: Run with -? for options 19: 19: ------------------------------------------------------------------------------- 19: test bgen 19: ------------------------------------------------------------------------------- 19: ./src/test/cpp/src/test_bgen.cc:11 19: ............................................................................... 19: 19: ./src/test/cpp/src/test_bgen.cc:11: FAILED: 19: due to unexpected exception with message: 19: Direct - first BGEN test output did not match reference output 19: 19: 0.000 s: test bgen 19: =============================================================================== 19: test cases: 30 | 29 passed | 1 failed 19: assertions: 1426 | 1425 passed | 1 failed 19: 19: 22:46:01.152 DEBUG NativeGenomicsDB - pid=3059 tid=3059 Deleting htslib_fs_adapter tiledb_ctx_map 20: 0.136 s: api query_variant_calls direct DP and GT 20: ---------------- 20: Interval:[0,1000000000] 20: 20: sample=HG00141 20: row=0 position=12140 20: genomic_interval=1:12141,12295 20: genomic_fields 20: REF:C ALT:[] GT:0/0 20: sample=HG01958 20: row=1 position=12144 20: genomic_interval=1:12145,12277 20: genomic_fields 20: REF:C ALT:[] GT:0|0 20: sample=HG00141 20: row=0 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[A, ] GT:0/1 20: sample=HG01958 20: row=1 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[T, ] GT:1/1 DP:120 20: sample=HG01530 20: row=2 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[A, ] GT:0/1 DP:76 15/21 Test #19: ctests ...........................***Failed 1.08 sec 0.004 s: Check loader configuration with json file 0.002 s: Check configuration with json file 0.002 s: Check configuration with json file and shared posifs optim 0.002 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 0.001 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 0.012 s: pb_vid_mapping_test 22:46:00.314 INFO NativeGenomicsDB - pid=3059 tid=3059 This is a test 22:46:00.315 WARN NativeGenomicsDB - pid=3059 tid=3059 This is a test 22:46:00.315 ERROR NativeGenomicsDB - pid=3059 tid=3059 This is a test 22:46:00.315 DEBUG NativeGenomicsDB - pid=3059 tid=3059 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 0.002 s: test logger 22:46:00.316 INFO NativeGenomicsDB - pid=3059 tid=3059 i=1 str=This is a test 22:46:00.316 WARN NativeGenomicsDB - pid=3059 tid=3059 i=2 str=This is a test 22:46:00.316 ERROR NativeGenomicsDB - pid=3059 tid=3059 i=3 str=This is a test 22:46:00.316 DEBUG NativeGenomicsDB - pid=3059 tid=3059 i=4 str=This is a test 22:46:00.316 INFO NativeGenomicsDB - pid=3059 tid=3059 i=6 str=This is a once_only test 22:46:00.316 WARN NativeGenomicsDB - pid=3059 tid=3059 i=7 str=This is a once_only test 0.000 s: test logger format 22:46:00.316 ERROR NativeGenomicsDB - pid=3059 tid=3059 i=1 str=This is a test 22:46:00.317 ERROR NativeGenomicsDB - pid=3059 tid=3059 Test Exception 22:46:00.317 ERROR NativeGenomicsDB - pid=3059 tid=3059 Test Exception 22:46:00.318 ERROR NativeGenomicsDB - pid=3059 tid=3059 Test Exception 22:46:00.318 ERROR NativeGenomicsDB - pid=3059 tid=3059 Native Stack Trace: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xd26b4) [0xaaaab35426b4] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xc6784) [0xaaaab3536784] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x4c438) [0xaaaab34bc438] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x655fc) [0xaaaab34d55fc] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6bc94) [0xaaaab34dbc94] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6d9e8) [0xaaaab34dd9e8] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6e030) [0xaaaab34de030] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3e5b0) [0xaaaab34ae5b0] /lib/aarch64-linux-gnu/libc.so.6(+0x27780) [0xffff94397780] 22:46:00.319 ERROR NativeGenomicsDB - pid=3059 tid=3059 Test Exception 22:46:00.319 ERROR NativeGenomicsDB - pid=3059 tid=3059 Native Stack Trace: /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xd26b4) [0xaaaab35426b4] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xc6794) [0xaaaab3536794] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x4c438) [0xaaaab34bc438] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x655fc) [0xaaaab34d55fc] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6bc94) [0xaaaab34dbc94] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6d9e8) [0xaaaab34dd9e8] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6e030) [0xaaaab34de030] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3e5b0) [0xaaaab34ae5b0] /lib/aarch64-linux-gnu/libc.so.6(+0x27780) [0xffff94397780] 0.003 s: test logger exceptions /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xd26b4) [0xaaaab35426b4] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xc93f0) [0xaaaab35393f0] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x4c438) [0xaaaab34bc438] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x655fc) [0xaaaab34d55fc] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6bc94) [0xaaaab34dbc94] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6d9e8) [0xaaaab34dd9e8] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6e030) [0xaaaab34de030] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3e5b0) [0xaaaab34ae5b0] /lib/aarch64-linux-gnu/libc.so.6(+0x27780) [0xffff94397780] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xd26b4) [0xaaaab35426b4] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0xc935c) [0xaaaab353935c] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x4c438) [0xaaaab34bc438] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x655fc) [0xaaaab34d55fc] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6bc94) [0xaaaab34dbc94] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6d9e8) [0xaaaab34dd9e8] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x6e030) [0xaaaab34de030] /srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu/src/test/cpp/ctests(+0x3e5b0) [0xaaaab34ae5b0] /lib/aarch64-linux-gnu/libc.so.6(+0x27780) [0xffff94397780] This is a test 0.001 s: test explicit logger 0.040 s: gvcf iterator 0.062 s: columnar_gvcf_iterator_test [TileDB] Error: No TileDB support for URL=dfdfd://ddd. 22:46:00.423 ERROR NativeGenomicsDB - pid=3059 tid=3059 htslib_plugin could not open file dfdfd://ddd No TileDB support for URL=dfdfd://ddd [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) 22:46:00.423 ERROR NativeGenomicsDB - pid=3059 tid=3059 hts_plugin read /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) 22:46:00.424 ERROR NativeGenomicsDB - pid=3059 tid=3059 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) 0.003 s: test htslib plugin 0.001 s: alleles_combiner 0.000 s: gt_remapper ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ctests is a Catch v2.13.10 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 =============================================================================== test cases: 30 | 29 passed | 1 failed assertions: 1426 | 1425 passed | 1 failed 22:46:01.152 DEBUG NativeGenomicsDB - pid=3059 tid=3059 Deleting htslib_fs_adapter tiledb_ctx_map 20: 0.107 s: api query_variant_calls direct DP and GT with PP 20: ---------------- 20: Interval:[0,1000000000] 20: 20: sample=HG00141 20: row=0 position=12140 20: genomic_interval=1:12141,12295 20: genomic_fields 20: REF:C ALT:[] 20: sample=HG01958 20: row=1 position=12144 20: genomic_interval=1:12145,12277 20: genomic_fields 20: REF:C ALT:[] 20: sample=HG00141 20: row=0 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[A, ] 20: sample=HG01958 20: row=1 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[T, ] DP:120 20: sample=HG01530 20: row=2 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[A, ] DP:76 20: 0.043 s: api query_variant_calls with json 20: ---------------- 20: Interval:[0,1000000000] 20: 20: sample=HG00141 20: row=0 position=12140 20: genomic_interval=1:12141,12295 20: genomic_fields 20: REF:C ALT:[] GT:0/0 20: sample=HG01958 20: row=1 position=12144 20: genomic_interval=1:12145,12277 20: genomic_fields 20: REF:C ALT:[] GT:0/0 20: sample=HG00141 20: row=0 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[A, ] GT:0/1 20: sample=HG01958 20: row=1 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[T, ] GT:1/1 DP:120 20: sample=HG01530 20: row=2 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[A, ] GT:0/1 DP:76 20: ---------------- 20: Interval:[0,249250620] 20: 20: sample=HG00141 20: row=0 position=12140 20: genomic_interval=1:12141,12295 20: genomic_fields 20: REF:C ALT:[] GT:0/0 20: sample=HG01958 20: row=1 position=12144 20: genomic_interval=1:12145,12277 20: genomic_fields 20: REF:C ALT:[] GT:0/0 20: sample=HG00141 20: row=0 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[A, ] GT:0/1 20: sample=HG01958 20: row=1 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[T, ] GT:1/1 DP:120 20: sample=HG01530 20: row=2 position=17384 20: genomic_interval=1:17385,17385 20: genomic_fields 20: REF:G ALT:[A, ] GT:0/1 DP:76 20: 0.052 s: api query_variant_calls with protobuf 20: 0.094 s: api generate_vcf direct 20: 0.027 s: api generate_vcf with json 20: 0.079 s: api generate_vcf with json multiple threads 20: ---------------- 20: Interval:[0,1000000000] 20: 20: ---------------- 20: Interval:[0,1000000000] 20: 20: 0.055 s: api annotate query_variant_calls with test datasource 0 20: =============================================================================== 20: All tests passed (731 assertions in 22 test cases) 20: 16/21 Test #20: api_tests ........................ Passed 1.49 sec 9: =============================================================================== 9: All tests passed (10488234 assertions in 9 test cases) 9: 17/21 Test #9: test_tiledb_utils ................ Passed 2.81 sec 17: +++ we are here 2 17: =============================================================================== 17: All tests passed (450703 assertions in 3 test cases) 17: 18/21 Test #17: test_storage_buffer .............. Passed 7.05 sec 21: 22:46:07.314 INFO NativeGenomicsDB - pid=3237 tid=3237 Reading 1 vcfs 21: 22:46:07.330 INFO NativeGenomicsDB - pid=3237 tid=3237 [STAGE 1 / 3] Reading 1 / 1 = 100.00% 21: [TileDB::StorageManager] Error: Cannot load array schema; Array '/tmp/test_tools-CDTqEP38Fh/ws_14934/1$1$249250621' does not exist. 21: 22:46:07.402 INFO NativeGenomicsDB - pid=3237 tid=3237 [STAGE 2 / 3] read_next_batch 0 / 1 = 0.00% 21: 22:46:07.407 INFO NativeGenomicsDB - pid=3237 tid=3237 [STAGE 3 / 3] progress: 12140 / 249250620 = 0.00% 21: [TileDB::utils] Error: (gzip_handle_error) Cannot compress with GZIP: deflateInit error: Z_STREAM_ERROR 21: [TileDB::Codec] Error: Could not compress with GZIP. 21: [TileDB::WriteState] Error: Cannot compress tile for /tmp/test_tools-CDTqEP38Fh/ws_14934/1$1$249250621/.__2b87b862-fde1-415a-99de-0e9c99771eca281473278510528_1687387567356/END.tdb. 21: 22:46:07.410 ERROR NativeGenomicsDB - pid=3237 tid=3237 VariantStorageManagerException exception : Error while finalizing GenomicsDB array 1$1$249250621 : [TileDB::WriteState] Error: Cannot compress tile for /tmp/test_tools-CDTqEP38Fh/ws_14934/1$1$249250621/.__2b87b862-fde1-415a-99de-0e9c99771eca281473278510528_1687387567356/END.tdb 21: terminate called after throwing an instance of 'VariantStorageManagerException' 21: what(): VariantStorageManagerException exception : Error while finalizing GenomicsDB array 1$1$249250621 : [TileDB::WriteState] Error: Cannot compress tile for /tmp/test_tools-CDTqEP38Fh/ws_14934/1$1$249250621/.__2b87b862-fde1-415a-99de-0e9c99771eca281473278510528_1687387567356/END.tdb 21: [cumin-landing-buildd-arm64-foyp:03237] *** Process received signal *** 21: [cumin-landing-buildd-arm64-foyp:03237] Signal: Aborted (6) 21: [cumin-landing-buildd-arm64-foyp:03237] Signal code: (-6) 21: [cumin-landing-buildd-arm64-foyp:03237] [ 0] linux-vdso.so.1(__kernel_rt_sigreturn+0x0)[0xffff9ae337bc] 21: [cumin-landing-buildd-arm64-foyp:03237] [ 1] /lib/aarch64-linux-gnu/libc.so.6(+0x80990)[0xffff9a260990] 21: [cumin-landing-buildd-arm64-foyp:03237] [ 2] /lib/aarch64-linux-gnu/libc.so.6(gsignal+0x1c)[0xffff9a21a76c] 21: [cumin-landing-buildd-arm64-foyp:03237] [ 3] /lib/aarch64-linux-gnu/libc.so.6(abort+0xf0)[0xffff9a2074bc] 21: [cumin-landing-buildd-arm64-foyp:03237] [ 4] /lib/aarch64-linux-gnu/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x178)[0xffff9a4e49c8] 21: [cumin-landing-buildd-arm64-foyp:03237] [ 5] /lib/aarch64-linux-gnu/libstdc++.so.6(+0xa23bc)[0xffff9a4e23bc] 21: [cumin-landing-buildd-arm64-foyp:03237] [ 6] /lib/aarch64-linux-gnu/libstdc++.so.6(+0xa2420)[0xffff9a4e2420] 21: [cumin-landing-buildd-arm64-foyp:03237] [ 7] /lib/aarch64-linux-gnu/libstdc++.so.6(+0xa2704)[0xffff9a4e2704] 21: [cumin-landing-buildd-arm64-foyp:03237] [ 8] vcf2genomicsdb(+0xd5d08)[0xaaaab6f15d08] 21: [cumin-landing-buildd-arm64-foyp:03237] [ 9] vcf2genomicsdb(+0xd44e8)[0xaaaab6f144e8] 21: [cumin-landing-buildd-arm64-foyp:03237] [10] vcf2genomicsdb(+0x64e54)[0xaaaab6ea4e54] 21: [cumin-landing-buildd-arm64-foyp:03237] [11] vcf2genomicsdb(+0x65f88)[0xaaaab6ea5f88] 21: [cumin-landing-buildd-arm64-foyp:03237] [12] vcf2genomicsdb(+0x315e8)[0xaaaab6e715e8] 21: [cumin-landing-buildd-arm64-foyp:03237] [13] /lib/aarch64-linux-gnu/libc.so.6(+0x27780)[0xffff9a207780] 21: [cumin-landing-buildd-arm64-foyp:03237] [14] /lib/aarch64-linux-gnu/libc.so.6(__libc_start_main+0x98)[0xffff9a207858] 21: [cumin-landing-buildd-arm64-foyp:03237] [15] vcf2genomicsdb(+0x34a70)[0xaaaab6e74a70] 21: [cumin-landing-buildd-arm64-foyp:03237] *** End of error message *** 21: command 'vcf2genomicsdb --progress /tmp/test_tools-CDTqEP38Fh/ws_14934/loader.json' returned 134 unexpectedly 19/21 Test #21: tools_tests ......................***Failed 7.33 sec 22:46:07.314 INFO NativeGenomicsDB - pid=3237 tid=3237 Reading 1 vcfs 22:46:07.330 INFO NativeGenomicsDB - pid=3237 tid=3237 [STAGE 1 / 3] Reading 1 / 1 = 100.00% [TileDB::StorageManager] Error: Cannot load array schema; Array '/tmp/test_tools-CDTqEP38Fh/ws_14934/1$1$249250621' does not exist. 22:46:07.402 INFO NativeGenomicsDB - pid=3237 tid=3237 [STAGE 2 / 3] read_next_batch 0 / 1 = 0.00% 22:46:07.407 INFO NativeGenomicsDB - pid=3237 tid=3237 [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-CDTqEP38Fh/ws_14934/1$1$249250621/.__2b87b862-fde1-415a-99de-0e9c99771eca281473278510528_1687387567356/END.tdb. 22:46:07.410 ERROR NativeGenomicsDB - pid=3237 tid=3237 VariantStorageManagerException exception : Error while finalizing GenomicsDB array 1$1$249250621 : [TileDB::WriteState] Error: Cannot compress tile for /tmp/test_tools-CDTqEP38Fh/ws_14934/1$1$249250621/.__2b87b862-fde1-415a-99de-0e9c99771eca281473278510528_1687387567356/END.tdb terminate called after throwing an instance of 'VariantStorageManagerException' what(): VariantStorageManagerException exception : Error while finalizing GenomicsDB array 1$1$249250621 : [TileDB::WriteState] Error: Cannot compress tile for /tmp/test_tools-CDTqEP38Fh/ws_14934/1$1$249250621/.__2b87b862-fde1-415a-99de-0e9c99771eca281473278510528_1687387567356/END.tdb [cumin-landing-buildd-arm64-foyp:03237] *** Process received signal *** [cumin-landing-buildd-arm64-foyp:03237] Signal: Aborted (6) [cumin-landing-buildd-arm64-foyp:03237] Signal code: (-6) [cumin-landing-buildd-arm64-foyp:03237] [ 0] linux-vdso.so.1(__kernel_rt_sigreturn+0x0)[0xffff9ae337bc] [cumin-landing-buildd-arm64-foyp:03237] [ 1] /lib/aarch64-linux-gnu/libc.so.6(+0x80990)[0xffff9a260990] [cumin-landing-buildd-arm64-foyp:03237] [ 2] /lib/aarch64-linux-gnu/libc.so.6(gsignal+0x1c)[0xffff9a21a76c] [cumin-landing-buildd-arm64-foyp:03237] [ 3] /lib/aarch64-linux-gnu/libc.so.6(abort+0xf0)[0xffff9a2074bc] [cumin-landing-buildd-arm64-foyp:03237] [ 4] /lib/aarch64-linux-gnu/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x178)[0xffff9a4e49c8] [cumin-landing-buildd-arm64-foyp:03237] [ 5] /lib/aarch64-linux-gnu/libstdc++.so.6(+0xa23bc)[0xffff9a4e23bc] [cumin-landing-buildd-arm64-foyp:03237] [ 6] /lib/aarch64-linux-gnu/libstdc++.so.6(+0xa2420)[0xffff9a4e2420] [cumin-landing-buildd-arm64-foyp:03237] [ 7] /lib/aarch64-linux-gnu/libstdc++.so.6(+0xa2704)[0xffff9a4e2704] [cumin-landing-buildd-arm64-foyp:03237] [ 8] vcf2genomicsdb(+0xd5d08)[0xaaaab6f15d08] [cumin-landing-buildd-arm64-foyp:03237] [ 9] vcf2genomicsdb(+0xd44e8)[0xaaaab6f144e8] [cumin-landing-buildd-arm64-foyp:03237] [10] vcf2genomicsdb(+0x64e54)[0xaaaab6ea4e54] [cumin-landing-buildd-arm64-foyp:03237] [11] vcf2genomicsdb(+0x65f88)[0xaaaab6ea5f88] [cumin-landing-buildd-arm64-foyp:03237] [12] vcf2genomicsdb(+0x315e8)[0xaaaab6e715e8] [cumin-landing-buildd-arm64-foyp:03237] [13] /lib/aarch64-linux-gnu/libc.so.6(+0x27780)[0xffff9a207780] [cumin-landing-buildd-arm64-foyp:03237] [14] /lib/aarch64-linux-gnu/libc.so.6(__libc_start_main+0x98)[0xffff9a207858] [cumin-landing-buildd-arm64-foyp:03237] [15] vcf2genomicsdb(+0x34a70)[0xaaaab6e74a70] [cumin-landing-buildd-arm64-foyp:03237] *** End of error message *** command 'vcf2genomicsdb --progress /tmp/test_tools-CDTqEP38Fh/ws_14934/loader.json' returned 134 unexpectedly 8: 10% [=== ] 20% [====== ] 30% [========= ] 40% [============ ] 50% [=============== ] 60% [================== ] 70% [===================== ] 80% [======================= ] 89% [========================== ] 99% [============================= ] =============================================================================== 8: All tests passed (14323414 assertions in 14 test cases) 8: 20/21 Test #8: test_sparse_array_api ............ Passed 10.96 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 (130312969 assertions in 4 test cases) 7: 21/21 Test #7: test_dense_array_api ............. Passed 15.89 sec 76% tests passed, 5 tests failed out of 21 Total Test time (real) = 15.94 sec The following tests FAILED:  5 - test_array_iterator (Failed)  6 - test_array_schema_api (Failed)  18 - ci_tests (Failed)  19 - ctests (Failed)  21 - tools_tests (Failed) Errors while running CTest make[1]: *** [Makefile:74: test] Error 8 make[1]: Leaving directory '/srv/build/genomicsdb-1.4.4/obj-aarch64-linux-gnu' dh_auto_test: error: cd obj-aarch64-linux-gnu && make -j16 test ARGS\+=--verbose ARGS\+=-j16 returned exit code 2 make: *** [debian/rules:17: binary-arch] Error 255 dpkg-buildpackage: error: debian/rules binary-arch subprocess returned exit status 2 Command `dpkg-buildpackage --changes-option=-DDistribution=landing -B -mDebian Med Packaging Team -eDebian Med Packaging Team ` failed. Command debspawn build --no-buildlog --arch=arm64 --results-dir=/var/lib/lkspark/workspaces/4fd622fa-a3e2-49f7-bdba-7892538a589e --only=arch --maintainer=Debian Med Packaging Team landing genomicsdb_1.4.4-3.dsc failed with error code 2